|
Galaxy Server administration |
Galaxy on the Cloud |
https://training.galaxyproject.org//topics/admin/tutorials/cloudbursting/slides.html |
|
|
2019-01-31 |
2024-12-19 |
7 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Controlling Galaxy with systemd or Supervisor |
https://training.galaxyproject.org//topics/admin/tutorials/systemd-supervisor/slides.html |
|
|
2019-01-28 |
2023-04-16 |
5 |
False |
True |
True |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Server: Other |
https://training.galaxyproject.org//topics/admin/tutorials/stuff/slides.html |
|
|
2018-01-07 |
2023-02-17 |
6 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Reference Data with Data Managers |
https://training.galaxyproject.org//topics/admin/tutorials/reference-genomes/tutorial.html |
|
Genome indexing, Generation, Sequence alignment, Read mapping |
2019-01-28 |
2026-01-23 |
7 |
True |
True |
False |
False |
bwa, data_manager_fetch_genome_all_fasta_dbkey, bwa_mem_index_builder_data_manager |
|
|
0 |
|
3944438 |
9281118 |
15.750000 |
0 |
|
Galaxy Server administration |
uWSGI |
https://training.galaxyproject.org//topics/admin/tutorials/uwsgi/slides.html |
|
|
2019-01-28 |
2022-03-01 |
9 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Galaxy Administrator Time Burden and Technology Usage |
https://training.galaxyproject.org//topics/admin/tutorials/poll-ssa/slides.html |
|
|
2024-07-10 |
2024-07-10 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
1943651 |
3684263 |
1.583333 |
0 |
|
Galaxy Server administration |
Ansible |
https://training.galaxyproject.org//topics/admin/tutorials/ansible/tutorial.html |
|
|
2018-07-11 |
2024-08-08 |
48 |
True |
True |
True |
False |
|
|
|
0 |
|
3950410 |
9292022 |
7.716667 |
0 |
|
Galaxy Server administration |
Galaxy Monitoring |
https://training.galaxyproject.org//topics/admin/tutorials/general-monitoring/slides.html |
|
|
2019-04-26 |
2022-03-01 |
5 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Empathy |
https://training.galaxyproject.org//topics/admin/tutorials/empathy/slides.html |
|
|
2019-01-31 |
2021-04-06 |
4 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Advanced customisation of a Galaxy instance |
https://training.galaxyproject.org//topics/admin/tutorials/advanced-galaxy-customisation/slides.html |
|
|
2017-06-27 |
2023-04-17 |
18 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Galaxy Installation with Ansible |
https://training.galaxyproject.org//topics/admin/tutorials/ansible-galaxy/tutorial.html |
Database management, Informatics, Data management |
|
2019-01-28 |
2026-01-23 |
109 |
True |
True |
True |
False |
|
|
|
0 |
|
3969971 |
9328555 |
5.666667 |
0 |
|
Galaxy Server administration |
Docker and Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/galaxy-docker/slides.html |
|
|
2016-09-29 |
2022-10-18 |
16 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Running Jobs on Remote Resources with Pulsar |
https://training.galaxyproject.org//topics/admin/tutorials/pulsar/tutorial.html |
|
|
2019-01-28 |
2026-01-23 |
59 |
True |
True |
True |
False |
|
|
|
0 |
|
3946475 |
9284650 |
9.716667 |
0 |
|
Galaxy Server administration |
Setting up Celery Workers for Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/celery/tutorial.html |
|
|
2022-07-16 |
2025-11-24 |
19 |
True |
True |
False |
False |
|
|
|
0 |
|
3088596 |
6459837 |
10.516667 |
0 |
|
Galaxy Server administration |
Server Maintenance: Cleanup, Backup, and Restoration |
https://training.galaxyproject.org//topics/admin/tutorials/backup-cleanup/tutorial.html |
Database management, Informatics, Data management |
|
2019-01-31 |
2025-11-24 |
10 |
True |
True |
True |
False |
|
|
|
0 |
|
3944371 |
9281066 |
17.250000 |
0 |
|
Galaxy Server administration |
Gearing towards production |
https://training.galaxyproject.org//topics/admin/tutorials/production/slides.html |
|
|
2019-01-28 |
2025-11-20 |
11 |
False |
True |
True |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
User, Role, Group, Quota, and Authentication managment |
https://training.galaxyproject.org//topics/admin/tutorials/users-groups-quotas/slides.html |
|
|
2018-01-07 |
2024-08-08 |
19 |
False |
True |
True |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Galaxy Monitoring with Telegraf and Grafana |
https://training.galaxyproject.org//topics/admin/tutorials/monitoring/tutorial.html |
|
|
2019-01-31 |
2026-04-29 |
56 |
True |
True |
True |
False |
|
|
|
0 |
|
3946741 |
9285705 |
6.166667 |
0 |
|
Galaxy Server administration |
Galaxy from an administrator's point of view |
https://training.galaxyproject.org//topics/admin/tutorials/introduction/slides.html |
|
|
2017-06-12 |
2024-06-25 |
6 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Galaxy Tool Management with Ephemeris |
https://training.galaxyproject.org//topics/admin/tutorials/tool-management/tutorial.html |
|
|
2019-01-27 |
2025-04-03 |
39 |
True |
True |
True |
False |
|
|
|
0 |
|
3945932 |
9283266 |
11.650000 |
0 |
|
Galaxy Server administration |
Connecting Galaxy to a compute cluster |
https://training.galaxyproject.org//topics/admin/tutorials/connect-to-compute-cluster/tutorial.html |
|
|
2018-01-07 |
2025-11-24 |
65 |
True |
True |
True |
False |
|
|
|
0 |
|
3948003 |
9287466 |
10.400000 |
0 |
|
Galaxy Server administration |
Galaxy Troubleshooting |
https://training.galaxyproject.org//topics/admin/tutorials/troubleshooting/slides.html |
|
|
2019-01-28 |
2024-06-25 |
15 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
Galaxy Interactive Tools |
https://training.galaxyproject.org//topics/admin/tutorials/interactive-tools/tutorial.html |
|
|
2020-02-27 |
2026-01-23 |
30 |
True |
True |
True |
False |
|
|
|
0 |
|
3946193 |
9283871 |
9.383333 |
0 |
|
Galaxy Server administration |
Galactic Database |
https://training.galaxyproject.org//topics/admin/tutorials/database/slides.html |
|
|
2019-01-28 |
2025-11-20 |
6 |
False |
True |
True |
False |
|
|
|
0 |
|
3943686 |
9280178 |
2.083333 |
0 |
|
Galaxy Server administration |
External Authentication |
https://training.galaxyproject.org//topics/admin/tutorials/external-auth/tutorial.html |
|
|
2019-01-28 |
2022-10-18 |
14 |
True |
True |
False |
False |
|
|
|
0 |
|
3944462 |
9281357 |
9.366667 |
0 |
|
Galaxy Server administration |
Distributed Object Storage |
https://training.galaxyproject.org//topics/admin/tutorials/object-store/tutorial.html |
|
|
2019-01-28 |
2025-03-24 |
28 |
True |
True |
True |
False |
|
|
|
0 |
|
3945142 |
9282409 |
8.200000 |
0 |
|
Galaxy Server administration |
Data Libraries |
https://training.galaxyproject.org//topics/admin/tutorials/data-library/tutorial.html |
|
|
2021-01-14 |
2025-11-24 |
35 |
True |
True |
True |
False |
|
|
|
0 |
|
3928059 |
9217666 |
8.700000 |
0 |
|
Galaxy Server administration |
Reference Data with CVMFS |
https://training.galaxyproject.org//topics/admin/tutorials/cvmfs/tutorial.html |
|
|
2019-01-27 |
2026-01-23 |
55 |
True |
True |
True |
False |
|
|
|
0 |
|
3946081 |
9283633 |
11.416667 |
0 |
|
Galaxy Server administration |
Galaxy Monitoring with gxadmin |
https://training.galaxyproject.org//topics/admin/tutorials/gxadmin/tutorial.html |
|
|
2019-01-28 |
2025-11-13 |
27 |
True |
True |
True |
False |
|
|
|
0 |
|
3944677 |
9281683 |
14.800000 |
0 |
|
Galaxy Server administration |
Performant Uploads with TUS |
https://training.galaxyproject.org//topics/admin/tutorials/tus/tutorial.html |
|
|
2022-03-01 |
2025-11-22 |
22 |
True |
False |
True |
False |
|
|
|
0 |
|
972 |
1390 |
14.416667 |
0 |
|
Galaxy Server administration |
Alternative Celery Deployment for Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/celeryless/tutorial.html |
|
|
2024-11-07 |
2024-11-07 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
124 |
135 |
20.533333 |
0 |
|
Galaxy Server administration |
Mapping Jobs to Destinations using TPV |
https://training.galaxyproject.org//topics/admin/tutorials/job-destinations/tutorial.html |
|
|
2021-01-17 |
2026-01-23 |
44 |
True |
False |
True |
False |
|
|
|
0 |
|
1888 |
2876 |
10.933333 |
0 |
|
Galaxy Server administration |
Enable upload via FTP |
https://training.galaxyproject.org//topics/admin/tutorials/ftp/tutorial.html |
|
|
2021-06-18 |
2025-12-18 |
29 |
True |
False |
False |
False |
|
|
|
0 |
|
1369 |
1835 |
8.050000 |
0 |
|
Galaxy Server administration |
Galaxy Database schema |
https://training.galaxyproject.org//topics/admin/tutorials/database-schema/tutorial.html |
|
|
2016-07-20 |
2025-04-08 |
23 |
True |
False |
False |
False |
|
|
|
0 |
|
3163 |
5098 |
2.766667 |
0 |
|
Galaxy Server administration |
Customizing the look of Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/customization/tutorial.html |
|
|
2023-04-16 |
2025-11-22 |
8 |
True |
False |
False |
False |
|
|
|
0 |
|
706 |
852 |
14.116667 |
0 |
|
Galaxy Server administration |
Automation with Jenkins |
https://training.galaxyproject.org//topics/admin/tutorials/jenkins/tutorial.html |
|
|
2019-08-06 |
2022-10-18 |
10 |
True |
False |
False |
False |
|
|
|
0 |
|
8409 |
16563 |
1.366667 |
0 |
|
Galaxy Server administration |
Training Infrastructure as a Service (TIaaS) |
https://training.galaxyproject.org//topics/admin/tutorials/tiaas/tutorial.html |
|
|
2020-02-12 |
2025-11-24 |
45 |
True |
False |
True |
False |
|
|
|
0 |
|
651 |
849 |
12.816667 |
0 |
|
Galaxy Server administration |
Deploying a Beacon v1 in Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/beacon/tutorial.html |
|
|
2023-04-16 |
2025-11-22 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
207 |
225 |
19.633333 |
0 |
|
Galaxy Server administration |
Galaxy Monitoring with Reports |
https://training.galaxyproject.org//topics/admin/tutorials/reports/tutorial.html |
|
|
2019-01-31 |
2026-01-23 |
49 |
True |
False |
False |
False |
|
|
|
0 |
|
574 |
747 |
15.683333 |
0 |
|
Galaxy Server administration |
How I learned to stop worrying and love the systemd |
https://training.galaxyproject.org//topics/admin/tutorials/stop-worrying-love-systemd/tutorial.html |
|
|
2022-07-06 |
2023-09-28 |
3 |
True |
False |
False |
False |
|
|
|
0 |
|
750 |
853 |
4.266667 |
0 |
|
Galaxy Server administration |
Reference Data with CVMFS without Ansible |
https://training.galaxyproject.org//topics/admin/tutorials/cvmfs-manual/tutorial.html |
|
|
2020-06-17 |
2026-01-23 |
10 |
True |
False |
False |
False |
|
|
|
0 |
|
508 |
658 |
11.450000 |
0 |
|
Galaxy Server administration |
Monitoring Galaxy and Pulsar with Sentry |
https://training.galaxyproject.org//topics/admin/tutorials/sentry/tutorial.html |
|
|
2023-04-19 |
2025-12-18 |
13 |
True |
False |
False |
False |
|
|
|
0 |
|
286 |
336 |
15.933333 |
0 |
|
Galaxy Server administration |
Use Apptainer containers for running Galaxy jobs |
https://training.galaxyproject.org//topics/admin/tutorials/apptainer/tutorial.html |
|
|
2021-01-08 |
2025-11-24 |
19 |
True |
False |
True |
False |
|
|
|
0 |
|
1260 |
1578 |
9.783333 |
0 |
|
Galaxy Server administration |
Customizing the look of Galaxy (Manual) |
https://training.galaxyproject.org//topics/admin/tutorials/customization-manual/tutorial.html |
|
|
2023-04-16 |
2025-04-08 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
267 |
314 |
9.166667 |
0 |
|
Galaxy Server administration |
Adding file-sources to Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/file_sources/tutorial.html |
|
|
2025-01-20 |
2025-01-20 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
104 |
124 |
9.216667 |
0 |
|
Galaxy Server administration |
Configuring the Onedata connectors (remotes, Object Store, BYOS, BYOD) |
https://training.galaxyproject.org//topics/admin/tutorials/onedata-configuration/tutorial.html |
|
|
2025-03-24 |
2025-04-08 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
138 |
162 |
14.816667 |
0 |
|
Galaxy Server administration |
Create a subdomain for your community on UseGalaxy.eu |
https://training.galaxyproject.org//topics/admin/tutorials/subdomain/tutorial.html |
|
|
2024-11-27 |
2024-12-13 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
95 |
107 |
17.433333 |
0 |
|
Galaxy Server administration |
Upgrading Galaxy |
https://training.galaxyproject.org//topics/admin/tutorials/upgrading/tutorial.html |
|
|
2021-06-08 |
2026-01-23 |
11 |
True |
False |
True |
False |
|
|
|
0 |
|
817 |
1215 |
8.183333 |
0 |
|
Galaxy Server administration |
Galaxy Installation on Kubernetes |
https://training.galaxyproject.org//topics/admin/tutorials/k8s-deploying-galaxy/tutorial.html |
|
|
2019-07-02 |
2024-06-30 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
1723 |
2788 |
5.350000 |
0 |
|
Galaxy Server administration |
Managing Galaxy on Kubernetes |
https://training.galaxyproject.org//topics/admin/tutorials/k8s-managing-galaxy/tutorial.html |
|
|
2019-07-02 |
2024-12-19 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
756 |
1072 |
7.666667 |
0 |
|
Galaxy Server administration |
Galaxy usage on SURF Research Cloud |
https://training.galaxyproject.org//topics/admin/tutorials/surf-research-cloud-galaxy/tutorial.html |
Informatics, Data management |
|
2024-12-18 |
2025-08-05 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
166 |
188 |
7.583333 |
0 |
|
Galaxy Server administration |
Pulsar usage on SURF Research Cloud |
https://training.galaxyproject.org//topics/admin/tutorials/surf-research-cloud-pulsar/tutorial.html |
Informatics, Data management |
|
2024-12-18 |
2024-12-19 |
3 |
True |
False |
False |
False |
|
|
|
0 |
|
142 |
152 |
5.116667 |
0 |
|
Galaxy Server administration |
Deploying Tailscale/Headscale for private mesh networking |
https://training.galaxyproject.org//topics/admin/tutorials/wireguard-headscale/tutorial.html |
Data security, Software engineering |
|
2022-09-21 |
2024-12-19 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
2547 |
3241 |
1.150000 |
0 |
|
Galaxy Server administration |
Deploying Wireguard for private mesh networking |
https://training.galaxyproject.org//topics/admin/tutorials/wireguard/tutorial.html |
|
|
2022-09-21 |
2024-12-19 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
1214 |
1369 |
1.233333 |
0 |
|
Galaxy Server administration |
Deploying a compute cluster in OpenStack via Terraform |
https://training.galaxyproject.org//topics/admin/tutorials/terraform/tutorial.html |
|
|
2018-10-27 |
2024-12-19 |
15 |
True |
True |
False |
False |
|
|
|
0 |
|
3959899 |
9310537 |
3.266667 |
0 |
|
Image analysis using Deep Learning |
Contribute to the BioImage.IO models |
https://training.galaxyproject.org//topics/ai4life/tutorials/contribute-materials/slides.html |
|
|
2023-05-18 |
2023-05-24 |
3 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2577808 |
5172033 |
1.783333 |
0 |
|
Image analysis using Deep Learning |
Welcome to the BioImage Model Zoo |
https://training.galaxyproject.org//topics/ai4life/tutorials/welcome-bioimageio/slides.html |
|
|
2023-05-11 |
2023-05-18 |
3 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2592767 |
5204409 |
1.800000 |
0 |
|
Image analysis using Deep Learning |
BioImage Model Zoo: Advanced models in one-click |
https://training.galaxyproject.org//topics/ai4life/tutorials/getting-started/slides.html |
|
|
2023-04-18 |
2023-05-24 |
4 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2639960 |
5307805 |
1.800000 |
0 |
|
Assembly |
An Introduction to Genome Assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/general-introduction/tutorial.html |
|
Sequence composition calculation, Sequence assembly validation, De-novo assembly, Validation, Sequencing quality control, Statistical calculation, Visualisation, Formatting |
2017-05-23 |
2026-01-23 |
30 |
True |
True |
True |
True |
multiqc, quast, velvetg, fastqc, velveth, fastq_paired_end_interlacer |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
0 |
|
3983554 |
9344562 |
8.900000 |
0 |
|
Assembly |
Large genome assembly and polishing |
https://training.galaxyproject.org//topics/assembly/tutorials/largegenome/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
De-novo assembly, Sequence assembly visualisation, Box-Whisker plot plotting, Variant calling, Sequencing quality control, Base-calling, Genome assembly, Validation, Sequence contamination filtering, Sequence composition calculation, Cross-assembly, Sequence assembly validation, Scatter plot plotting, Sequence assembly, Pairwise sequence alignment, Statistical calculation, Visualisation, Mapping assembly |
2023-03-06 |
2026-01-23 |
15 |
True |
False |
True |
True |
nanoplot, genomescope, multiqc, meryl, minimap2, barchart_gnuplot, quast, fastp, fastqc, medaka_consensus_pipeline, flye, bandage_image, racon, busco, fasta-stats |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz |
0 |
|
8590 |
11036 |
5.400000 |
0 |
|
Assembly |
Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data |
https://training.galaxyproject.org//topics/assembly/tutorials/vgp_workflow_training/tutorial.html |
Sequence assembly, Chromosome conformation capture |
Visualisation, Sequence assembly validation |
2022-04-06 |
2026-05-18 |
27 |
True |
False |
True |
False |
quast |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
|
0 |
|
4947 |
6495 |
6.883333 |
0 |
|
Assembly |
Assembly of the mitochondrial genome from PacBio HiFi reads |
https://training.galaxyproject.org//topics/assembly/tutorials/mitochondrion-assembly/tutorial.html |
Genomics, Sequence assembly, Biodiversity, Mitochondria |
|
2024-09-03 |
2026-04-22 |
5 |
True |
False |
True |
True |
mitohifi, compress_file |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
1383 |
1649 |
11.216667 |
0 |
|
Assembly |
De Bruijn Graph Assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/debruijn-graph-assembly/tutorial.html |
|
Genome assembly, Optimisation and refinement, De-novo assembly, Sequence assembly visualisation, Sequence assembly, Formatting |
2017-05-24 |
2026-01-07 |
26 |
True |
True |
False |
True |
velvetg, velveth, velvetoptimiser, bandage_image, spades, fasta-stats |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, UseGalaxy.be, UseGalaxy.cz |
0 |
|
3950765 |
9291282 |
10.616667 |
0 |
|
Assembly |
Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data) |
https://training.galaxyproject.org//topics/assembly/tutorials/mrsa-nanopore/tutorial.html |
Sequence assembly, Whole genome sequencing, Public health and epidemiology, Genomics, Microbiology, Antimicrobial resistance |
Sequence composition calculation, Cross-assembly, Sequence assembly validation, Scatter plot plotting, Sequencing error detection, Filtering, De-novo assembly, Sequence assembly visualisation, Box-Whisker plot plotting, Sequencing quality control, Genome assembly, Mapping assembly, Read mapping, Statistical calculation, Visualisation, Sequence alignment, Sequence contamination filtering |
2021-03-24 |
2026-01-05 |
16 |
True |
False |
False |
True |
nanoplot, filtlong, quast, bwa_mem2, CONVERTER_bz2_to_uncompressed, __EXTRACT_DATASET__, __FLATTEN__, fastp, fastqc, polypolish, upload1, flye, bandage_image, porechop |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
11779 |
17503 |
7.716667 |
0 |
|
Assembly |
Making sense of a newly assembled genome |
https://training.galaxyproject.org//topics/assembly/tutorials/ecoli_comparison/tutorial.html |
Sequence assembly, Genomics, Microbiology |
Genome visualisation, Sequence visualisation, Sequence alignment, Read mapping, Mapping |
2018-06-14 |
2026-04-13 |
30 |
True |
False |
False |
True |
tp_cat, lastz_wrapper_2, random_lines1, cat1, circos_interval_to_tiles, circos, Grep1, jbrowse, fasta_compute_length, tp_sort_header_tool, bedtools_sortbed, mergeCols1, Cut1, tp_grep_tool, tp_sed_tool, fasta_filter_by_length, datamash_ops, bedtools_complementbed, tp_replace_in_line, bedtools_intersectbed, collapse_dataset, addValue, tp_replace_in_column, circos_aln_to_links, join1, upload1, Filter1 |
|
|
0 |
|
7044 |
13351 |
8.166667 |
0 |
|
Assembly |
Unicycler Assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/unicycler-assembly/tutorial.html |
Sequence assembly, Genomics, Microbiology |
Sequence composition calculation, Sequence assembly validation, Gene prediction, Validation, Coding region prediction, Sequencing quality control, Genome assembly, Aggregation, Statistical calculation, Visualisation, Genome annotation |
2017-10-11 |
2026-01-23 |
25 |
True |
True |
False |
True |
multiqc, quast, prokka, unicycler, fastqc |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3957332 |
9303199 |
7.083333 |
0 |
|
Assembly |
Chloroplast genome assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/chloroplast-assembly/tutorial.html |
|
Generation, De-novo assembly, Sequence assembly visualisation, Box-Whisker plot plotting, Read alignment, Analysis, Genome assembly, Genome annotation, Sequence alignment, Read mapping, Genome visualisation, Cross-assembly, Scatter plot plotting, Genome indexing, Gene prediction, Sequence assembly, Coding region prediction, Mapping assembly |
2020-12-04 |
2026-01-23 |
22 |
True |
False |
True |
True |
bwa_mem, bandage_info, nanoplot, pilon, prokka, upload1, jbrowse, flye, bandage_image, fasta-stats |
UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
8851 |
13618 |
7.983333 |
0 |
|
Assembly |
ERGA post-assembly QC |
https://training.galaxyproject.org//topics/assembly/tutorials/ERGA-post-assembly-QC/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Genotyping, Sequence alignment analysis, Sequence assembly validation, De-novo assembly, Sequence trimming, Sequence assembly visualisation, Data deposition, Pairwise sequence alignment, Genome assembly, k-mer counting, Data parsing, Data handling, Phasing, Scaffolding, Visualisation, Sequence alignment |
2023-06-23 |
2025-06-04 |
8 |
True |
False |
True |
True |
pretext_snapshot, meryl, gfastats, interactive_tool_blobtoolkit, busco, pretext_map, __EXTRACT_DATASET__, bellerophon, genomescope, merqury, smudgeplot, samtools_stats, bg_diamond, CONVERTER_gz_to_uncompressed, tp_find_and_replace, collapse_dataset, bwa_mem2, blobtoolkit, bandage_image, minimap2 |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.org (Main) |
0 |
|
2670 |
3386 |
8.616667 |
0 |
|
Assembly |
Vertebrate genome assembly using HiFi, Bionano and Hi-C data - Step by Step |
https://training.galaxyproject.org//topics/assembly/tutorials/vgp_genome_assembly/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Sequence assembly validation, Primer removal, De-novo assembly, Sequence trimming, Read pre-processing, Mapping, Genome assembly, Pairwise sequence alignment, k-mer counting, Read binning, Data handling, Phasing, Scaffolding, Visualisation, Sequence alignment |
2021-06-04 |
2026-04-13 |
59 |
True |
False |
True |
True |
cutadapt, pretext_snapshot, collection_column_join, meryl, gfastats, Convert characters1, cat1, busco, gfa_to_fa, yahs, pretext_map, bellerophon, sort1, Add_a_column1, salsa, purge_dups, genomescope, tp_cut_tool, merqury, tp_grep_tool, hifiasm, tp_find_and_replace, collapse_dataset, bionano_scaffold, bwa_mem2, quast, bedtools_bamtobed, minimap2 |
|
UseGalaxy.cz |
0 |
|
19939 |
28710 |
3.150000 |
0 |
|
Assembly |
Decontamination of a genome assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/assembly-decontamination/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Data handling, Taxonomic classification |
2024-09-04 |
2025-06-04 |
5 |
True |
False |
True |
True |
tp_cat, ncbi_dustmasker_wrapper, kraken2, tp_sed_tool, Cut1, parse_mito_blast, gfastats, Filter1, ncbi_blastn_wrapper |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz |
0 |
|
2325 |
2810 |
9.100000 |
0 |
|
Assembly |
Hybrid genome assembly - Nanopore and Illumina |
https://training.galaxyproject.org//topics/assembly/tutorials/hybrid_denovo_assembly/tutorial.html |
|
Cross-assembly, Generation, Sequence assembly validation, Genome indexing, De-novo assembly, Read alignment, Sequence assembly, Sequencing quality control, Analysis, Genome assembly, Aggregation, Mapping assembly, Read mapping, Visualisation, Validation, Sequence alignment |
2025-11-03 |
2025-11-06 |
2 |
True |
False |
False |
True |
bwa_mem, multiqc, pilon, quast, unicycler, flye, busco |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.no |
0 |
|
1709 |
2059 |
4.500000 |
0 |
|
Assembly |
Assembly of metagenomic sequencing data |
https://training.galaxyproject.org//topics/assembly/tutorials/metagenomics-assembly/tutorial.html |
Metagenomics, Sequence assembly |
Sequence alignment analysis, Local alignment, Primer removal, Sequence assembly visualisation, Variant calling, Sequencing quality control, Genome assembly, Formatting, Read mapping, Sequence contamination filtering, Sequence composition calculation, Sequence assembly validation, Sequence trimming, Sequence file editing, Read pre-processing, Statistical calculation, Data handling, Visualisation |
2026-07-12 |
2026-07-12 |
0 |
True |
False |
True |
True |
filter_tabular, bandage_info, tp_cat, cutadapt, coverm_contig, collection_column_join, megahit_contig2fastg, quast, bamtools, ngsutils_bam_filter, metaspades, seqtk_subseq, bowtie2, fastqc, random_lines1, bandage_image, megahit, bg_uniq |
|
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
0 |
|
1 |
1 |
0.000000 |
0 |
|
Assembly |
Genome assembly using PacBio data |
https://training.galaxyproject.org//topics/assembly/tutorials/hifi-assembly/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Genome assembly, Cross-assembly, Sequence assembly validation, De-novo assembly, Visualisation, Mapping assembly |
2021-11-29 |
2025-06-04 |
2 |
True |
False |
False |
True |
quast, hifiasm, flye, fasta-stats, busco, gfa_to_fa |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.no |
0 |
|
1948 |
2348 |
5.883333 |
0 |
|
Assembly |
Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data |
https://training.galaxyproject.org//topics/assembly/tutorials/mrsa-illumina/tutorial.html |
Sequence assembly, Whole genome sequencing, Public health and epidemiology, Genomics, Microbiology |
Sequence assembly validation, Sequence assembly visualisation, Sequencing quality control, Genome assembly, Read mapping, Visualisation, Sequence contamination filtering |
2021-03-24 |
2026-01-05 |
18 |
True |
False |
True |
True |
bandage_info, shovill, quast, fastp, upload1, falco, bandage_image |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
12035 |
18206 |
9.566667 |
0 |
|
Assembly |
Genome Assembly Quality Control |
https://training.galaxyproject.org//topics/assembly/tutorials/assembly-quality-control/tutorial.html |
Biodiversity, Sequence assembly, Data quality management |
Genome assembly, k-mer counting, Sequence assembly validation, De-novo assembly, Phasing, Scaffolding, Visualisation |
2022-08-26 |
2025-06-04 |
6 |
True |
True |
False |
True |
chromeister, merqury, meryl, quast, busco |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr |
UseGalaxy.cz |
0 |
|
3043927 |
6327644 |
10.233333 |
0 |
|
Assembly |
Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads |
https://training.galaxyproject.org//topics/assembly/tutorials/assembly-with-preprocessing/tutorial.html |
|
Scatter plot plotting, Sequence assembly visualisation, Box-Whisker plot plotting, Sequence file editing, Sequencing quality control, Pairwise sequence alignment, Genome assembly, Aggregation, Read mapping, Data handling, Validation, Sequence contamination filtering |
2020-04-21 |
2025-05-15 |
14 |
True |
True |
True |
True |
bandage_info, multiqc, nanoplot, fasterq_dump, collapse_dataset, samtools_stats, samtools_view, fastp, unicycler, bowtie2, seqtk_sample, fasta_filter_by_length, __ZIP_COLLECTION__, samtools_fastx, bandage_image, minimap2 |
UseGalaxy.org.au, UseGalaxy.eu |
Galaxy@AuBi, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
3950438 |
9291242 |
10.633333 |
0 |
|
Assembly |
An introduction to get started in genome assembly and annotation |
https://training.galaxyproject.org//topics/assembly/tutorials/get-started-genome-assembly/slides.html |
|
|
2021-11-30 |
2023-10-23 |
7 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3462088 |
7655130 |
1.983333 |
0 |
|
Assembly |
Genome assembly and assembly QC - Introduction short version |
https://training.galaxyproject.org//topics/assembly/tutorials/assembly_and_qc_short/slides.html |
|
|
2025-04-22 |
2026-02-12 |
4 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1494193 |
2571204 |
1.266667 |
0 |
|
Assembly |
Deeper look into Genome Assembly algorithms |
https://training.galaxyproject.org//topics/assembly/tutorials/algorithms-introduction/slides.html |
|
|
2021-01-12 |
2021-01-12 |
1 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3922930 |
9211648 |
2.066667 |
0 |
|
Climate |
Pangeo Notebook in Galaxy - Introduction to Xarray |
https://training.galaxyproject.org//topics/climate/tutorials/pangeo-notebook/tutorial.html |
|
|
2022-02-18 |
2025-05-10 |
11 |
True |
True |
True |
True |
interactive_tool_pangeo_notebook |
UseGalaxy.eu |
|
0 |
|
3337206 |
7255952 |
10.533333 |
0 |
|
Climate |
Ocean's variables study |
https://training.galaxyproject.org//topics/climate/tutorials/ocean-variables/tutorial.html |
|
|
2023-11-29 |
2025-05-10 |
5 |
True |
False |
False |
True |
interactive_tool_divand, divand_full_analysis, interactive_tool_odv |
UseGalaxy.eu |
|
0 |
|
302 |
350 |
13.150000 |
0 |
|
Climate |
Analyse Argo data |
https://training.galaxyproject.org//topics/climate/tutorials/argo_pangeo/tutorial.html |
|
|
2024-03-24 |
2025-05-10 |
2 |
True |
False |
False |
True |
xarray_metadata_info, timeseries_extraction, argo_getdata, xarray_coords_info, interactive_tool_odv |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
418 |
482 |
10.133333 |
0 |
|
Climate |
Sentinel 5P data visualisation |
https://training.galaxyproject.org//topics/climate/tutorials/sentinel5_data/tutorial.html |
|
|
2024-01-26 |
2026-07-02 |
3 |
True |
False |
False |
True |
interactive_tool_panoply, interactive_tool_copernicus_notebook |
UseGalaxy.eu |
|
0 |
|
420 |
474 |
7.350000 |
0 |
|
Climate |
Getting your hands-on climate data |
https://training.galaxyproject.org//topics/climate/tutorials/climate-101/tutorial.html |
|
Visualisation |
2020-04-30 |
2026-05-15 |
15 |
True |
False |
False |
True |
psy_maps, ggplot2_point, Grep1, climate_stripes, cds_essential_variability, interactive_tool_panoply, tp_awk_tool, datamash_ops |
UseGalaxy.eu |
|
0 |
|
1238 |
1673 |
8.216667 |
0 |
|
Climate |
Pangeo ecosystem 101 for everyone - Introduction to Xarray Galaxy Tools |
https://training.galaxyproject.org//topics/climate/tutorials/pangeo/tutorial.html |
|
Visualisation |
2022-02-18 |
2025-05-10 |
6 |
True |
True |
True |
True |
regexColumn1, ggplot2_point, __EXTRACT_DATASET__, climate_stripes, xarray_metadata_info, xarray_select, xarray_netcdf2netcdf, xarray_coords_info, graphicsmagick_image_montage, __MERGE_COLLECTION__, xarray_mapplot |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
3336894 |
7255327 |
13.700000 |
0 |
|
Climate |
Functionally Assembled Terrestrial Ecosystem Simulator (FATES) |
https://training.galaxyproject.org//topics/climate/tutorials/fates/tutorial.html |
|
Visualisation |
2020-10-25 |
2025-05-10 |
18 |
True |
True |
True |
True |
tp_find_and_replace, ggplot2_point, __EXTRACT_DATASET__, xarray_metadata_info, xarray_select, interactive_tool_panoply, ctsm_fates |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
3945297 |
9282653 |
8.166667 |
0 |
|
Climate |
Nitrate DMQC for autonomous platforms such as Argo floats |
https://training.galaxyproject.org//topics/climate/tutorials/ocean_qcv_analysis/tutorial.html |
|
|
2025-08-08 |
2025-09-16 |
3 |
True |
False |
False |
True |
tool_odv_history, tool_biogeochemical_calibration, harmonize_insitu_to_netcdf, tool_odv, interactive_tool_odv |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
130 |
143 |
12.350000 |
0 |
|
Climate |
Introduction to climate data |
https://training.galaxyproject.org//topics/climate/tutorials/introduction/slides.html |
|
|
2020-10-11 |
2025-05-10 |
2 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943686 |
9280185 |
2.083333 |
0 |
|
Climate |
Visualize Climate data with Panoply netCDF viewer |
https://training.galaxyproject.org//topics/climate/tutorials/panoply/tutorial.html |
|
|
2020-03-05 |
2025-05-10 |
18 |
True |
False |
False |
False |
interactive_tool_panoply |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
6868 |
10916 |
1.950000 |
0 |
|
Climate |
Ocean Data View (ODV) |
https://training.galaxyproject.org//topics/climate/tutorials/ocean-data-view/tutorial.html |
|
|
2023-11-27 |
2025-05-10 |
2 |
True |
False |
False |
False |
interactive_tool_odv |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
572 |
674 |
5.666667 |
0 |
|
Climate |
Getting your hands-on earth data |
https://training.galaxyproject.org//topics/climate/tutorials/earth_system/tutorial.html |
|
|
2024-10-04 |
2025-05-10 |
2 |
True |
False |
False |
False |
c3s, obis_data, argo_getdata, spocc_occ |
UseGalaxy.eu |
UseGalaxy.be |
0 |
|
207 |
251 |
11.650000 |
0 |
|
Climate |
Collaboration with JupyterGIS |
https://training.galaxyproject.org//topics/climate/tutorials/jupytergis_collaboration/tutorial.html |
|
|
2025-04-03 |
2025-05-10 |
4 |
True |
False |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
272 |
323 |
10.233333 |
0 |
|
Climate |
Functionally Assembled Terrestrial Ecosystem Simulator (FATES) with Galaxy Climate JupyterLab |
https://training.galaxyproject.org//topics/climate/tutorials/fates-jupyterlab/tutorial.html |
|
|
2020-10-25 |
2025-05-10 |
16 |
True |
False |
False |
False |
interactive_tool_jupyter_notebook |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
621 |
1033 |
8.900000 |
0 |
|
Galaxy Community Building |
What's a Special Interest Group? |
https://training.galaxyproject.org//topics/community/tutorials/sig_define/tutorial.html |
|
|
2024-07-08 |
2024-12-20 |
3 |
True |
False |
False |
False |
|
|
|
0 |
|
193 |
234 |
17.066667 |
0 |
|
Galaxy Community Building |
Creation of the labs in the different Galaxy instances for your community |
https://training.galaxyproject.org//topics/community/tutorials/community-lab/tutorial.html |
|
|
2025-10-04 |
2026-06-26 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
110 |
134 |
11.966667 |
0 |
|
Galaxy Community Building |
Make your tools available on your subdomain |
https://training.galaxyproject.org//topics/community/tutorials/tools_subdomains/tutorial.html |
|
|
2024-12-03 |
2024-12-20 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
86 |
101 |
12.783333 |
0 |
|
Galaxy Community Building |
Creation of resources listing Galaxy workflow for your community |
https://training.galaxyproject.org//topics/community/tutorials/community-workflow-table/tutorial.html |
|
|
2025-09-17 |
2025-11-27 |
3 |
True |
False |
False |
False |
|
|
|
0 |
|
55 |
58 |
18.300000 |
0 |
|
Galaxy Community Building |
Creating community content |
https://training.galaxyproject.org//topics/community/tutorials/community_content/tutorial.html |
|
|
2024-12-20 |
2024-12-20 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
163 |
180 |
8.450000 |
0 |
|
Galaxy Community Building |
Creation of a Galaxy tutorial table for your community |
https://training.galaxyproject.org//topics/community/tutorials/community-tutorial-table/tutorial.html |
|
|
2025-09-17 |
2025-10-28 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
69 |
73 |
16.100000 |
0 |
|
Galaxy Community Building |
Creation of resources listing all the tools and their metadata relevant to your community |
https://training.galaxyproject.org//topics/community/tutorials/community-tool-table/tutorial.html |
|
|
2024-03-13 |
2026-04-30 |
6 |
True |
False |
False |
False |
|
|
|
0 |
|
176 |
201 |
10.200000 |
0 |
|
Galaxy Community Building |
Creating a Special Interest Group |
https://training.galaxyproject.org//topics/community/tutorials/sig_create/tutorial.html |
|
|
2024-07-08 |
2024-12-20 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
255 |
271 |
9.383333 |
0 |
|
Computational chemistry |
High Throughput Molecular Dynamics and Analysis |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/htmd-analysis/tutorial.html |
|
|
2020-05-20 |
2025-04-08 |
19 |
True |
False |
True |
True |
bio3d_rmsf, gmx_merge_topology_files, md_converter, gmx_editconf, gmx_em, get_pdb, bio3d_rmsd, gmx_energy, gmx_sim, vmd_hbonds, tp_grep_tool, bio3d_pca, gmx_solvate, gmx_setup, bio3d_pca_visualize, mdanalysis_cosine_analysis, openbabel_compound_convert, ambertools_acpype |
UseGalaxy.org.au, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
12109 |
20791 |
4.816667 |
0 |
|
Computational chemistry |
Analysis of molecular dynamics simulations |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/analysis-md-simulations/tutorial.html |
|
|
2019-06-03 |
2023-11-09 |
13 |
True |
False |
False |
True |
bio3d_rmsf, bio3d_pca, mdanalysis_cosine_analysis, mdanalysis_rdf, mdanalysis_ramachandran_plot, mdanalysis_distance, mdanalysis_dihedral, bio3d_rmsd |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no |
0 |
|
33730 |
59035 |
2.366667 |
0 |
|
Computational chemistry |
Protein-ligand docking |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/cheminformatics/tutorial.html |
|
|
2019-10-19 |
2025-12-04 |
17 |
True |
False |
False |
True |
ctb_chemfp_butina_clustering, tp_cat, ctb_online_data_fetch, get_pdb, ctb_change_title, ctb_chemfp_nxn_clustering, ctb_remDuplicates, ctb_chemfp_mol2fps, fpocket, prepare_box, openbabel_svg_depiction, ctb_remIons, tp_grep_tool, docking, openbabel_compound_convert, ctb_filter, tp_find_and_replace, collapse_dataset, ctb_np-likeness-calculator, chembl, ctb_compound_convert, sdf_to_tab, prepare_receptor, ctb_obgrep |
|
UseGalaxy.org (Main) |
0 |
|
21332 |
35733 |
3.233333 |
0 |
|
Computational chemistry |
Data management in Medicinal Chemistry |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/med-chem-data/tutorial.html |
|
|
2024-01-08 |
2024-09-13 |
4 |
True |
False |
True |
True |
openbabel_svg_depiction, md_converter, get_pdb, ctb_silicos_qed, chembl, ctb_im_rxn_maker, openbabel_compound_convert |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.no |
0 |
|
636 |
747 |
9.700000 |
0 |
|
Computational chemistry |
Running molecular dynamics simulations using GROMACS |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/md-simulation-gromacs/tutorial.html |
|
|
2019-06-03 |
2023-11-09 |
15 |
True |
False |
False |
True |
gmx_editconf, gmx_em, get_pdb, gmx_sim, tp_grep_tool, gmx_solvate, gmx_setup |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no |
0 |
|
29268 |
50800 |
2.450000 |
0 |
|
Computational chemistry |
Virtual screening of the SARS-CoV-2 main protease with rxDock and pose scoring |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/covid19-docking/tutorial.html |
|
|
2020-03-27 |
2023-11-09 |
10 |
True |
False |
False |
True |
split_file_to_collection, rxdock_rbdock, collapse_dataset, ctb_frankenstein_ligand, xchem_pose_scoring, xchem_transfs_scoring, rxdock_rbcavity, rdock_rbcavity, rdock_rbdock, sucos_max_score, openbabel_compound_convert, enumerate_charges |
|
|
0 |
|
3383 |
5452 |
8.450000 |
0 |
|
Computational chemistry |
Running molecular dynamics simulations using NAMD |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/md-simulation-namd/tutorial.html |
|
|
2019-06-03 |
2023-11-09 |
9 |
True |
False |
False |
True |
namd_nvt, minimizer, setup, namd_npt |
|
|
0 |
|
4466 |
7339 |
4.000000 |
0 |
|
Computational chemistry |
Protein target prediction of a bioactive ligand with Align-it and ePharmaLib |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/zauberkugel/tutorial.html |
|
|
2022-02-15 |
2024-06-14 |
10 |
True |
False |
False |
True |
split_file_to_collection, tp_cat, ctb_alignit, rdconf, sort1, openbabel_addh |
UseGalaxy.cz |
|
0 |
|
1475 |
2061 |
7.716667 |
0 |
|
Computational chemistry |
Setting up molecular systems |
https://training.galaxyproject.org//topics/computational-chemistry/tutorials/setting-up-molecular-systems/tutorial.html |
|
|
2019-06-03 |
2023-11-09 |
14 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1999 |
2658 |
10.416667 |
0 |
|
Contributing to the Galaxy Training Material |
Contributing to the Galaxy Training Network with GitHub |
https://training.galaxyproject.org//topics/contributing/tutorials/github-contribution/tutorial.html |
|
|
2017-06-12 |
2025-03-14 |
2 |
True |
True |
False |
False |
|
|
|
0 |
|
3943902 |
9280424 |
13.866667 |
0 |
|
Contributing to the Galaxy Training Material |
Overview of the Galaxy Training Material |
https://training.galaxyproject.org//topics/contributing/tutorials/introduction/slides.html |
|
|
2017-06-25 |
2025-03-14 |
2 |
False |
True |
False |
False |
|
|
|
0 |
|
3943686 |
9280186 |
2.083333 |
0 |
|
Contributing to the Galaxy Training Material |
Adding auto-generated video to your slides |
https://training.galaxyproject.org//topics/contributing/tutorials/slides-with-video/tutorial.html |
|
|
2020-10-20 |
2023-11-09 |
12 |
True |
False |
False |
False |
|
|
|
0 |
|
324 |
407 |
14.083333 |
0 |
|
Contributing to the Galaxy Training Material |
Design and plan session, course, materials |
https://training.galaxyproject.org//topics/contributing/tutorials/design/tutorial.html |
|
|
2022-09-23 |
2025-03-11 |
12 |
True |
False |
False |
False |
|
|
|
0 |
|
717 |
937 |
9.966667 |
0 |
|
Contributing to the Galaxy Training Material |
Including a new topic |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-topic/tutorial.html |
|
|
2018-06-04 |
2025-12-01 |
33 |
True |
False |
False |
False |
|
|
|
0 |
|
1329 |
1791 |
3.916667 |
0 |
|
Contributing to the Galaxy Training Material |
Tools, Data, and Workflows for tutorials |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-tutorial-technical/tutorial.html |
|
|
2017-06-25 |
2025-04-08 |
26 |
True |
False |
False |
False |
|
|
|
0 |
|
617 |
810 |
14.083333 |
0 |
|
Contributing to the Galaxy Training Material |
Updating diffs in admin training |
https://training.galaxyproject.org//topics/contributing/tutorials/admin-knitting/tutorial.html |
|
|
2021-06-07 |
2023-11-23 |
9 |
True |
False |
False |
False |
|
|
|
0 |
|
107 |
149 |
26.100000 |
0 |
|
Contributing to the Galaxy Training Material |
Principles of learning and how they apply to training and teaching |
https://training.galaxyproject.org//topics/contributing/tutorials/learning-principles/tutorial.html |
|
|
2022-09-23 |
2025-03-11 |
17 |
True |
False |
False |
False |
|
|
|
0 |
|
5795 |
6943 |
1.600000 |
0 |
|
Contributing to the Galaxy Training Material |
Teaching Python |
https://training.galaxyproject.org//topics/contributing/tutorials/python/tutorial.html |
|
|
2022-10-19 |
2023-11-23 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
409 |
725 |
8.866667 |
0 |
|
Contributing to the Galaxy Training Material |
GTN Metadata |
https://training.galaxyproject.org//topics/contributing/tutorials/schemas/tutorial.html |
|
|
2022-06-02 |
2024-10-15 |
8 |
True |
False |
False |
False |
|
|
|
0 |
|
310 |
398 |
13.883333 |
0 |
|
Contributing to the Galaxy Training Material |
Creating Interactive Galaxy Tours |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-tutorial-tours/tutorial.html |
|
|
2017-06-25 |
2025-04-08 |
13 |
True |
False |
False |
False |
|
|
|
0 |
|
350 |
508 |
13.383333 |
0 |
|
Contributing to the Galaxy Training Material |
FAIR-by-Design methodology |
https://training.galaxyproject.org//topics/contributing/tutorials/fair-by-design/tutorial.html |
|
|
2024-10-17 |
2024-10-17 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
96 |
105 |
11.000000 |
0 |
|
Contributing to the Galaxy Training Material |
Adding Quizzes to your Tutorial |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-tutorial-quiz/tutorial.html |
|
|
2022-05-19 |
2022-10-18 |
3 |
True |
False |
False |
False |
|
|
|
0 |
|
152 |
169 |
12.200000 |
0 |
|
Contributing to the Galaxy Training Material |
Contributing with GitHub via its interface |
https://training.galaxyproject.org//topics/contributing/tutorials/github-interface-contribution/tutorial.html |
|
|
2018-06-12 |
2023-11-09 |
17 |
True |
False |
False |
False |
|
|
|
0 |
|
728 |
1081 |
13.466667 |
0 |
|
Contributing to the Galaxy Training Material |
Generating PDF artefacts of the website |
https://training.galaxyproject.org//topics/contributing/tutorials/generating-pdf/tutorial.html |
|
|
2018-06-04 |
2023-11-09 |
12 |
True |
False |
False |
False |
|
|
|
0 |
|
106 |
124 |
23.250000 |
0 |
|
Contributing to the Galaxy Training Material |
Preview the GTN website as you edit your training material |
https://training.galaxyproject.org//topics/contributing/tutorials/rendering_gtn/tutorial.html |
|
|
2025-03-14 |
2026-02-04 |
4 |
True |
False |
True |
False |
|
|
|
0 |
|
650 |
862 |
11.883333 |
0 |
|
Contributing to the Galaxy Training Material |
Creating a new tutorial |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-tutorial/tutorial.html |
|
Read mapping, Primer removal, Data handling, Sequence trimming, Sequence file editing, Read pre-processing |
2018-06-20 |
2025-11-20 |
33 |
True |
False |
True |
True |
fastq_to_tabular, tp_cat, tp_cut_tool, cutadapt, bam_to_sam, tp_sorted_uniq, Cut1, tp_sed_tool, seqtk_subseq, bowtie2, random_lines1, Filter1, c3s |
|
|
0 |
|
2033 |
2922 |
12.866667 |
0 |
|
Contributing to the Galaxy Training Material |
Single Cell Publication - Data Analysis |
https://training.galaxyproject.org//topics/contributing/tutorials/meta-analysis-data/tutorial.html |
|
|
2024-11-07 |
2024-11-07 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
124 |
128 |
9.516667 |
0 |
|
Contributing to the Galaxy Training Material |
Single Cell Publication - Data Plotting |
https://training.galaxyproject.org//topics/contributing/tutorials/meta-analysis-plot/tutorial.html |
|
|
2024-11-07 |
2024-11-07 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
90 |
90 |
13.850000 |
0 |
|
Contributing to the Galaxy Training Material |
FAIR Galaxy Training Material |
https://training.galaxyproject.org//topics/contributing/tutorials/fair-gtn/tutorial.html |
|
|
2026-07-12 |
2026-07-12 |
0 |
True |
False |
False |
False |
|
|
|
0 |
|
0 |
0 |
0.000000 |
0 |
|
Contributing to the Galaxy Training Material |
Creating content in Markdown |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-tutorial-content/tutorial.html |
|
Validation, Sequencing quality control |
2017-06-25 |
2025-04-08 |
85 |
True |
False |
False |
False |
multiqc, upload1 |
|
|
0 |
|
3977 |
10041 |
7.233333 |
0 |
|
Contributing to the Galaxy Training Material |
Creating Slides |
https://training.galaxyproject.org//topics/contributing/tutorials/create-new-tutorial-slides/slides.html |
|
|
2018-06-13 |
2024-11-08 |
17 |
False |
True |
True |
False |
|
|
|
0 |
|
3943686 |
9280186 |
2.083333 |
0 |
|
Contributing to the Galaxy Training Material |
Updating tool versions in a tutorial |
https://training.galaxyproject.org//topics/contributing/tutorials/updating_tutorial/tutorial.html |
|
|
2024-11-29 |
2024-11-29 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
179 |
201 |
14.733333 |
0 |
|
Variant Analysis |
From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/sars-cov-2/tutorial.html |
|
Formatting, Generation, Genome indexing, Sequence contamination filtering, Sequencing quality control, Read mapping, SNP detection, Data handling, Validation, Sequence alignment |
2020-06-24 |
2024-06-14 |
16 |
True |
False |
True |
True |
snpSift_extractFields, bwa_mem, multiqc, tp_cut_tool, fasterq_dump, samtools_stats, Grep1, lofreq_call, snpeff_sars_cov_2, fastp, lofreq_indelqual, lofreq_viterbi, picard_MarkDuplicates, Filter1 |
UseGalaxy.eu, UseGalaxy.org (Main) |
MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
14294 |
21314 |
6.500000 |
0 |
|
Variant Analysis |
Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/sars-cov-2-variant-discovery/tutorial.html |
|
Tree-based sequence alignment, Methylation analysis, Variant calling, Variant classification |
2021-06-30 |
2025-03-28 |
18 |
True |
False |
True |
False |
pangolin, fasta_regex_finder, upload1, datamash_ops, Filter1, nextclade |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
7804 |
13753 |
7.516667 |
0 |
|
Sequence analysis |
Removal of human reads from SARS-CoV-2 sequencing data |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/human-reads-removal/tutorial.html |
|
Generation, Genome indexing, Data handling, Sequence file editing, Sequence alignment, Read mapping |
2021-08-04 |
2023-11-09 |
5 |
True |
False |
False |
True |
__UNZIP_COLLECTION__, bwa_mem, Grep1, trimmomatic, seqtk_subseq, __ZIP_COLLECTION__, samtools_fastx, tp_replace_in_line |
UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
4294 |
6031 |
9.233333 |
0 |
|
Using Galaxy and Managing your Data |
Submitting sequence data to ENA |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/upload-data-to-ena/tutorial.html |
|
|
2021-08-10 |
2024-12-11 |
10 |
True |
True |
False |
True |
ena_upload, ena_consensus_submit |
|
|
0 |
|
3622983 |
8189866 |
6.733333 |
0 |
|
Using Galaxy and Managing your Data |
Automating Galaxy workflows using the command line |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/workflow-automation/tutorial.html |
|
Variant classification, Read mapping, Sequence contamination filtering, Tree-based sequence alignment, Visualisation, Validation, Sequencing quality control |
2021-06-08 |
2025-12-18 |
11 |
True |
False |
True |
True |
pangolin, multiqc, collapse_dataset, bcftools_consensus, fastp, falco, compose_text_param, snpSift_filter |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
3243 |
4036 |
8.666667 |
0 |
|
Using Galaxy and Managing your Data |
SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/ncbi-sarf/tutorial.html |
|
Data handling, SNP detection |
2021-05-31 |
2024-06-14 |
12 |
True |
True |
True |
False |
query_tabular, tp_cat, fasterq_dump, snpeff_sars_cov_2, fastq_dump, fastq_to_fasta_python, jq |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
3724553 |
8526000 |
11.733333 |
0 |
|
Sequence analysis |
SARS-CoV-2 Viral Sample Alignment and Variant Visualization |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/sars-with-galaxy-on-anvil/tutorial.html |
|
Statistical calculation, Sequence composition calculation, Sequencing quality control, Genome visualisation, Generation, Genome indexing, Sequence alignment, Read mapping |
2023-07-10 |
2024-02-29 |
2 |
True |
False |
False |
False |
bwa_mem, fastqc, jbrowse |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
Galaxy@AuBi, Galaxy@Pasteur, GalaxyTrakr, MISSISSIPPI, UseGalaxy.cz |
0 |
|
1760 |
2232 |
11.066667 |
0 |
|
Foundations of Data Science |
Data Manipulation Olympics |
https://training.galaxyproject.org//topics/data-science/tutorials/data-manipulation-olympics/tutorial.html |
|
|
2026-07-12 |
2026-07-12 |
0 |
True |
False |
False |
True |
tp_cat, Remove beginning1, {{version_cut_advanced}}, cat1, {{version_replace_text_line}}, tabular_to_csv, {{version_count}}, {{version_filter}}, Count1, Add_a_column1, {{version_remove_beginning}}, {{version_join}}, {{version_replace_text_column}}, Grouping1, {{version_cut_columns}}, tp_sort_header_tool, {{version_select_first}}, {{version_split}}, tp_sorted_uniq, wc_gnu, Cut1, {{version_cat}}, {{version_compute}}, {{version_unique}}, datamash_ops, {{version_paste}}, Show beginning1, {{version_remove_columns_by_header}}, regexColumn1, {{version_datamash}}, join1, tp_split_on_column, upload1, {{version_wc}}, Filter1, {{version_sort}} |
|
|
0 |
|
0 |
0 |
0.000000 |
0 |
|
Foundations of Data Science |
Learning about one gene across biological resources and formats |
https://training.galaxyproject.org//topics/data-science/tutorials/online-resources-gene/tutorial.html |
|
|
2023-09-07 |
2026-03-30 |
4 |
True |
True |
True |
False |
ncbi_blastp_wrapper |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@Pasteur, GalaxyTrakr, IPK Galaxy Blast Suite, MISSISSIPPI, PhagePromotor, UseGalaxy.no |
0 |
|
2374650 |
4729579 |
13.350000 |
0 |
|
Foundations of Data Science |
A (very) brief history of genomics |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture1/tutorial.html |
|
|
2024-01-09 |
2024-02-20 |
2 |
True |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2217347 |
4379187 |
31.350000 |
0 |
|
Foundations of Data Science |
One protein along the UniProt page |
https://training.galaxyproject.org//topics/data-science/tutorials/online-resources-protein/tutorial.html |
|
|
2023-09-07 |
2026-03-30 |
6 |
True |
False |
False |
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Variant Calling Workflow |
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2022-07-07 |
2023-10-23 |
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Foundations of Data Science |
Advanced SQL |
https://training.galaxyproject.org//topics/data-science/tutorials/sql-advanced/tutorial.html |
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2024-12-13 |
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Foundations of Data Science |
CLI Educational Game - Bashcrawl |
https://training.galaxyproject.org//topics/data-science/tutorials/cli-bashcrawl/tutorial.html |
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Foundations of Data Science |
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https://training.galaxyproject.org//topics/data-science/tutorials/python-warmup-stat-ml/tutorial.html |
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Foundations of Data Science |
Version Control with Git |
https://training.galaxyproject.org//topics/data-science/tutorials/bash-git/tutorial.html |
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2023-10-23 |
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interactive_tool_rstudio |
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Foundations of Data Science |
R basics in Galaxy |
https://training.galaxyproject.org//topics/data-science/tutorials/r-basics/tutorial.html |
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2019-10-08 |
2024-06-14 |
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interactive_tool_rstudio |
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Foundations of Data Science |
Introduction to SQL |
https://training.galaxyproject.org//topics/data-science/tutorials/sql-basic/tutorial.html |
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2021-10-11 |
2024-12-13 |
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Foundations of Data Science |
SQL with R |
https://training.galaxyproject.org//topics/data-science/tutorials/sql-r/tutorial.html |
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2021-10-11 |
2023-11-16 |
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Foundations of Data Science |
Make & Snakemake |
https://training.galaxyproject.org//topics/data-science/tutorials/snakemake/tutorial.html |
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2021-11-18 |
2025-07-09 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
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https://training.galaxyproject.org//topics/data-science/tutorials/cli-basics/tutorial.html |
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2021-09-30 |
2024-10-15 |
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Foundations of Data Science |
SQL with Python |
https://training.galaxyproject.org//topics/data-science/tutorials/sql-python/tutorial.html |
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2021-10-11 |
2023-11-16 |
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Foundations of Data Science |
SQL Educational Game - Murder Mystery |
https://training.galaxyproject.org//topics/data-science/tutorials/sql-game/tutorial.html |
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2021-10-11 |
2023-11-23 |
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Foundations of Data Science |
Python - Math |
https://training.galaxyproject.org//topics/data-science/tutorials/python-math/tutorial.html |
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2022-04-25 |
2023-02-13 |
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Foundations of Data Science |
Introduction to Python |
https://training.galaxyproject.org//topics/data-science/tutorials/python-basics/tutorial.html |
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2021-11-08 |
2024-10-15 |
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Foundations of Data Science |
Advanced CLI in Galaxy |
https://training.galaxyproject.org//topics/data-science/tutorials/cli-advanced/tutorial.html |
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2021-09-30 |
2024-10-15 |
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Foundations of Data Science |
Basics of using Git from the Command Line |
https://training.galaxyproject.org//topics/data-science/tutorials/git-cli/tutorial.html |
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2022-06-16 |
2023-11-16 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Introduction to sequencing with Python (part one) |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture2/tutorial.html |
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2024-01-23 |
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Foundations of Data Science |
Python - Functions |
https://training.galaxyproject.org//topics/data-science/tutorials/python-functions/tutorial.html |
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2022-04-25 |
2023-02-13 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Advanced R in Galaxy |
https://training.galaxyproject.org//topics/data-science/tutorials/r-advanced/tutorial.html |
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2019-12-09 |
2024-10-15 |
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interactive_tool_rstudio |
UseGalaxy.eu |
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Foundations of Data Science |
Data visualisation Olympics - Visualization in R |
https://training.galaxyproject.org//topics/data-science/tutorials/data-manipulation-olympics-viz-r/tutorial.html |
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2023-06-16 |
2024-05-07 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Advanced Python |
https://training.galaxyproject.org//topics/data-science/tutorials/python-advanced-np-pd/tutorial.html |
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2021-11-08 |
2024-10-15 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
dplyr & tidyverse for data processing |
https://training.galaxyproject.org//topics/data-science/tutorials/r-dplyr/tutorial.html |
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2021-10-20 |
2024-10-15 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Data Manipulation Olympics - SQL |
https://training.galaxyproject.org//topics/data-science/tutorials/data-manipulation-olympics-sql/tutorial.html |
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2023-06-16 |
2024-05-07 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Plotting in Python |
https://training.galaxyproject.org//topics/data-science/tutorials/python-plotting/tutorial.html |
|
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2021-11-08 |
2024-10-15 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Python - Basic Types & Type Conversion |
https://training.galaxyproject.org//topics/data-science/tutorials/python-types/tutorial.html |
|
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2022-04-25 |
2023-02-13 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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463 |
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Foundations of Data Science |
Introduction to sequencing with Python (part two) |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture3/tutorial.html |
|
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2024-01-23 |
2024-02-20 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Introduction to sequencing with Python (part three) |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture4/tutorial.html |
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2024-02-06 |
2024-02-20 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Python - Lists & Strings & Dictionaries |
https://training.galaxyproject.org//topics/data-science/tutorials/python-iterables/tutorial.html |
|
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2022-04-25 |
2024-06-25 |
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True |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2355 |
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Foundations of Data Science |
Data Manipulation Olympics - JQ |
https://training.galaxyproject.org//topics/data-science/tutorials/data-manipulation-olympics-jq/tutorial.html |
|
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2023-06-16 |
2024-05-07 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Introduction to sequencing with Python (part four) |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture5/tutorial.html |
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2024-02-13 |
2024-02-20 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Python - Flow Control |
https://training.galaxyproject.org//topics/data-science/tutorials/python-flow/tutorial.html |
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2022-04-25 |
2023-02-13 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Python - Loops |
https://training.galaxyproject.org//topics/data-science/tutorials/python-loops/tutorial.html |
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2022-04-25 |
2023-02-13 |
3 |
True |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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485 |
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Foundations of Data Science |
Data manipulation with Pandas |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture6/tutorial.html |
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2024-02-20 |
2025-02-27 |
4 |
True |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Python - Files & CSV |
https://training.galaxyproject.org//topics/data-science/tutorials/python-files/tutorial.html |
|
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2022-04-25 |
2023-02-13 |
4 |
True |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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Foundations of Data Science |
Versioning your code and data with git |
https://training.galaxyproject.org//topics/data-science/tutorials/gnmx-lecture7/tutorial.html |
|
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2024-03-12 |
2024-03-12 |
1 |
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Foundations of Data Science |
Python - Try & Except |
https://training.galaxyproject.org//topics/data-science/tutorials/python-exceptions/tutorial.html |
|
|
2022-04-25 |
2023-02-13 |
3 |
True |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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668 |
754 |
4.433333 |
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Foundations of Data Science |
Python - Introductory Graduation |
https://training.galaxyproject.org//topics/data-science/tutorials/python-basics-recap/tutorial.html |
|
|
2022-04-25 |
2023-02-13 |
4 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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287 |
332 |
12.233333 |
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Foundations of Data Science |
Conda Environments For Software Development |
https://training.galaxyproject.org//topics/data-science/tutorials/python-conda/tutorial.html |
|
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2022-10-19 |
2023-05-18 |
3 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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817 |
872 |
4.883333 |
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Foundations of Data Science |
Virtual Environments For Software Development |
https://training.galaxyproject.org//topics/data-science/tutorials/python-venv/tutorial.html |
|
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2022-10-19 |
2023-05-18 |
2 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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299 |
321 |
9.400000 |
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Foundations of Data Science |
Python - Argparse |
https://training.galaxyproject.org//topics/data-science/tutorials/python-argparse/tutorial.html |
|
|
2022-04-25 |
2023-01-24 |
5 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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1436 |
1556 |
2.516667 |
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Foundations of Data Science |
Python - Testing |
https://training.galaxyproject.org//topics/data-science/tutorials/python-testing/tutorial.html |
|
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2022-10-19 |
2023-02-13 |
2 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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278 |
302 |
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Foundations of Data Science |
Python - Type annotations |
https://training.galaxyproject.org//topics/data-science/tutorials/python-typing/tutorial.html |
|
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2022-10-19 |
2023-02-13 |
2 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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688 |
726 |
4.133333 |
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Foundations of Data Science |
Python - Globbing |
https://training.galaxyproject.org//topics/data-science/tutorials/python-glob/tutorial.html |
|
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2022-04-25 |
2023-02-13 |
3 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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601 |
644 |
5.433333 |
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Foundations of Data Science |
Python - Subprocess |
https://training.galaxyproject.org//topics/data-science/tutorials/python-subprocess/tutorial.html |
|
|
2022-04-25 |
2023-02-13 |
3 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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1246 |
1436 |
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Foundations of Data Science |
Python - Coding Style |
https://training.galaxyproject.org//topics/data-science/tutorials/python-linting/tutorial.html |
|
|
2022-11-03 |
2023-05-18 |
2 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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297 |
312 |
12.450000 |
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Foundations of Data Science |
Python - Multiprocessing |
https://training.galaxyproject.org//topics/data-science/tutorials/python-multiprocessing/tutorial.html |
|
|
2022-10-19 |
2023-11-16 |
4 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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961 |
1026 |
4.316667 |
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Development in Galaxy |
Tool Dependencies and Conda |
https://training.galaxyproject.org//topics/dev/tutorials/conda/slides.html |
|
|
2017-06-20 |
2023-04-14 |
33 |
False |
True |
False |
False |
|
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0 |
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3943740 |
9280189 |
2.083333 |
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Development in Galaxy |
Architecture 13 - Galaxy Dependencies Management |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-dependencies/slides.html |
|
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2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
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0 |
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466957 |
803798 |
1.350000 |
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Development in Galaxy |
Architecture 09 - Galaxy Plugin Architecture |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-plugins/slides.html |
|
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2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
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0 |
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466957 |
803798 |
1.350000 |
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Development in Galaxy |
Architecture 07 - Galaxy Task Management with Celery |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-tasks/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
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0 |
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466957 |
803798 |
1.350000 |
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Development in Galaxy |
Tool Dependencies and Containers |
https://training.galaxyproject.org//topics/dev/tutorials/containers/slides.html |
|
|
2017-06-20 |
2022-10-18 |
14 |
False |
True |
False |
False |
|
|
|
0 |
|
3943740 |
9280189 |
2.083333 |
0 |
|
Development in Galaxy |
Galaxy Interactive Environments |
https://training.galaxyproject.org//topics/dev/tutorials/interactive-environments/slides.html |
|
|
2017-02-05 |
2023-02-17 |
16 |
False |
True |
False |
False |
|
|
|
0 |
|
3943740 |
9280189 |
2.083333 |
0 |
|
Development in Galaxy |
Generic plugins |
https://training.galaxyproject.org//topics/dev/tutorials/visualization-generic/tutorial.html |
|
|
2016-09-30 |
2023-11-09 |
21 |
True |
True |
False |
False |
|
|
|
0 |
|
3944157 |
9280759 |
12.300000 |
0 |
|
Development in Galaxy |
Architecture 10 - Galaxy File Sources Architecture |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-file-sources/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
JavaScript plugins |
https://training.galaxyproject.org//topics/dev/tutorials/visualization-charts/tutorial.html |
|
|
2017-06-22 |
2025-04-08 |
20 |
True |
True |
False |
False |
|
|
|
0 |
|
3944513 |
9281101 |
6.983333 |
0 |
|
Development in Galaxy |
Architecture 01 - Galaxy Ecosystem and Projects |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-ecosystem/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Architecture 08 - Galaxy Application Components: Models, Managers, and Services |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-application-components/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Scripting Galaxy using the API and BioBlend |
https://training.galaxyproject.org//topics/dev/tutorials/bioblend-api/tutorial.html |
|
|
2017-01-17 |
2023-11-16 |
22 |
True |
True |
True |
False |
|
|
|
0 |
|
3944602 |
9281286 |
12.916667 |
0 |
|
Development in Galaxy |
Architecture 03 - Galaxy Architecture Principles |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-principles/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Architecture 14 - Galaxy Startup Process |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-startup/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Prerequisites for building software/conda packages |
https://training.galaxyproject.org//topics/dev/tutorials/conda_sys/slides.html |
|
|
2018-02-15 |
2021-05-28 |
6 |
False |
True |
False |
False |
|
|
|
0 |
|
3943740 |
9280189 |
2.083333 |
0 |
|
Development in Galaxy |
Architecture 12 - Galaxy Client Architecture |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-client/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Architecture 06 - Dependency Injection in Galaxy |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-dependency-injection/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Architecture 02 - Galaxy Project Management and Contribution |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-project-management/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Architecture 16 - Galaxy Testing |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-tests/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Tool Shed: sharing Galaxy tools |
https://training.galaxyproject.org//topics/dev/tutorials/toolshed/slides.html |
|
|
2017-06-12 |
2022-10-18 |
15 |
False |
True |
False |
False |
|
|
|
0 |
|
3943740 |
9280189 |
2.083333 |
0 |
|
Development in Galaxy |
Galaxy Webhooks |
https://training.galaxyproject.org//topics/dev/tutorials/webhooks/tutorial.html |
|
|
2017-04-03 |
2025-04-08 |
16 |
True |
True |
False |
False |
|
|
|
0 |
|
3943968 |
9280481 |
11.350000 |
0 |
|
Development in Galaxy |
Galaxy Interactive Tours |
https://training.galaxyproject.org//topics/dev/tutorials/interactive-tours/slides.html |
|
|
2017-01-12 |
2021-07-27 |
14 |
False |
True |
False |
False |
|
|
|
0 |
|
3943740 |
9280189 |
2.083333 |
0 |
|
Development in Galaxy |
Architecture 15 - Galaxy Production Deployment |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-production/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
ToolFactory: Generating Tools From Simple Scripts |
https://training.galaxyproject.org//topics/dev/tutorials/tool-generators/tutorial.html |
|
|
2021-05-26 |
2024-06-14 |
10 |
True |
True |
True |
False |
|
|
|
0 |
|
3732263 |
8551095 |
8.816667 |
0 |
|
Development in Galaxy |
Architecture 05 - Galaxy Web Frameworks |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-frameworks/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Architecture 04 - Galaxy Files and Directory Structure |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-files/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
Tool development and integration into Galaxy |
https://training.galaxyproject.org//topics/dev/tutorials/tool-integration/slides.html |
|
|
2016-09-30 |
2025-04-08 |
30 |
external |
True |
False |
False |
|
|
|
0 |
|
3943747 |
9280199 |
12.916667 |
0 |
|
Development in Galaxy |
Architecture 11 - Galaxy Markdown Architecture |
https://training.galaxyproject.org//topics/dev/tutorials/architecture-markdown/slides.html |
|
|
2026-02-19 |
2026-02-19 |
1 |
False |
True |
False |
False |
|
|
|
0 |
|
466957 |
803798 |
1.350000 |
0 |
|
Development in Galaxy |
nb2workflow: Generating Galaxy Tools From Jupyter Notebooks |
https://training.galaxyproject.org//topics/dev/tutorials/tool-from-notebook/tutorial.html |
|
|
2025-12-04 |
2025-12-04 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
96 |
102 |
12.200000 |
0 |
|
Development in Galaxy |
ToolFactory: Generating Tools From More Complex Scripts |
https://training.galaxyproject.org//topics/dev/tutorials/tool-generators-advanced/tutorial.html |
|
|
2021-05-26 |
2024-09-27 |
12 |
True |
False |
True |
False |
|
|
|
0 |
|
506 |
592 |
11.733333 |
0 |
|
Development in Galaxy |
Writing Automated Tests for Galaxy |
https://training.galaxyproject.org//topics/dev/tutorials/writing_tests/tutorial.html |
|
|
2022-07-15 |
2026-02-19 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
333 |
761 |
12.066667 |
0 |
|
Development in Galaxy |
Creating Galaxy tools from Conda Through Deployment |
https://training.galaxyproject.org//topics/dev/tutorials/tool-from-scratch/tutorial.html |
|
|
2021-06-15 |
2024-10-08 |
15 |
True |
False |
True |
False |
|
|
|
0 |
|
2990 |
4750 |
6.183333 |
0 |
|
Development in Galaxy |
Adding and updating best practice metadata for Galaxy tools using the bio.tools registry |
https://training.galaxyproject.org//topics/dev/tutorials/tool-annotation/tutorial.html |
|
|
2024-03-06 |
2024-11-06 |
5 |
True |
False |
False |
False |
|
|
|
0 |
|
350 |
409 |
9.750000 |
0 |
|
Development in Galaxy |
Setting up a dev Onedata instance |
https://training.galaxyproject.org//topics/dev/tutorials/onedata-dev-instance/tutorial.html |
|
|
2025-03-24 |
2025-04-08 |
2 |
True |
False |
False |
False |
|
|
|
0 |
|
77 |
81 |
15.950000 |
0 |
|
Development in Galaxy |
Debugging Galaxy |
https://training.galaxyproject.org//topics/dev/tutorials/debugging/tutorial.html |
|
|
2021-06-15 |
2026-02-19 |
16 |
True |
False |
False |
False |
|
|
|
0 |
|
683 |
1289 |
9.466667 |
0 |
|
Development in Galaxy |
Contributing to BioBlend as a developer |
https://training.galaxyproject.org//topics/dev/tutorials/bioblend-dev/tutorial.html |
|
|
2021-05-25 |
2023-11-09 |
8 |
True |
False |
False |
False |
|
|
|
0 |
|
309 |
400 |
15.416667 |
0 |
|
Development in Galaxy |
Galaxy Interactive Tools |
https://training.galaxyproject.org//topics/dev/tutorials/interactive-tools/tutorial.html |
|
|
2022-03-02 |
2024-12-03 |
9 |
True |
False |
False |
False |
|
|
|
0 |
|
1443 |
1889 |
7.533333 |
0 |
|
Development in Galaxy |
Data source integration |
https://training.galaxyproject.org//topics/dev/tutorials/data-source-integration/tutorial.html |
|
|
2016-09-30 |
2022-10-18 |
15 |
True |
False |
False |
False |
|
|
|
0 |
|
270 |
380 |
13.866667 |
0 |
|
Development in Galaxy |
Contributing a New Feature to Galaxy Core |
https://training.galaxyproject.org//topics/dev/tutorials/core-contributing/tutorial.html |
|
|
2021-06-08 |
2026-02-19 |
11 |
True |
False |
False |
False |
|
|
|
0 |
|
845 |
1224 |
12.016667 |
0 |
|
Digital Humanities |
Text-Mining Differences in Chinese Newspaper Articles |
https://training.galaxyproject.org//topics/digital-humanities/tutorials/text_mining_chinese/tutorial.html |
|
|
2025-02-28 |
2026-05-06 |
7 |
True |
False |
False |
True |
diff, Grep1, Cut1, Add_a_column1, wordcloud, datamash_ops, tp_replace_in_line, tp_sort_header_tool |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
|
0 |
|
280 |
315 |
10.150000 |
0 |
|
Digital Humanities |
Transcribing Audio and Video files with Automated Speech Recognition |
https://training.galaxyproject.org//topics/digital-humanities/tutorials/Whisper_speech_recognition/tutorial.html |
|
|
2026-04-08 |
2026-04-08 |
1 |
True |
False |
False |
True |
tp_find_and_replace, tp_grep_tool, whisperx |
UseGalaxy.eu |
|
0 |
|
146 |
164 |
11.200000 |
0 |
|
Digital Humanities |
Introduction to Digital Humanities in Galaxy |
https://training.galaxyproject.org//topics/digital-humanities/tutorials/introduction_to_dh/tutorial.html |
|
|
2025-09-11 |
2026-05-04 |
6 |
True |
False |
False |
True |
diff, tp_find_and_replace, tp_grep_tool, Remove beginning1, wordcloud, tp_replace_in_line |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
|
0 |
|
272 |
322 |
11.100000 |
0 |
|
Digital Humanities |
OpenRefine Tutorial for researching cultural data |
https://training.galaxyproject.org//topics/digital-humanities/tutorials/open-refine-tutorial/tutorial.html |
|
|
2025-09-24 |
2026-04-29 |
3 |
True |
False |
False |
True |
param_value_from_file, filter_tabular, regexColumn1, compose_text_param, barchart_gnuplot, Cut1, Remove beginning1, tp_grep_tool, interactive_tool_openrefine, wordcloud, datamash_ops, tp_head_tool, tp_sort_header_tool |
UseGalaxy.eu |
|
0 |
|
275 |
309 |
10.000000 |
0 |
|
Ecology |
RAD-Seq Reference-based data analysis |
https://training.galaxyproject.org//topics/ecology/tutorials/ref-based-rad-seq/tutorial.html |
|
Sequence composition calculation, Generation, Genome indexing, Validation, Sequencing quality control, Statistical calculation, Data handling, Sequence alignment, Read mapping |
2017-02-14 |
2026-05-07 |
16 |
True |
False |
False |
True |
stacks_procrad, regex_replace, bwa_wrapper, multiqc, stacks_refmap, Grep1, addValue, bwa, Cut1, Count1, Summary_Statistics1, fastqc, Convert characters1, stacks_populations, cat1, Filter1, tp_replace_in_line, tp_sort_header_tool |
|
|
0 |
|
3544 |
5381 |
4.866667 |
0 |
|
Ecology |
Sentinel 2 biodiversity |
https://training.galaxyproject.org//topics/ecology/tutorials/remote-sensing/tutorial.html |
|
|
2023-04-13 |
2025-12-08 |
7 |
True |
False |
False |
True |
srs_process_data, srs_pca, srs_preprocess_s2, srs_global_indices, srs_diversity_maps, srs_spectral_indices |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
715 |
899 |
7.033333 |
0 |
|
Ecology |
Champs blocs indicators |
https://training.galaxyproject.org//topics/ecology/tutorials/champs-blocs/tutorial.html |
|
|
2023-01-04 |
2026-05-07 |
13 |
True |
False |
False |
True |
cb_dissim, cb_qecb, cb_div, cb_eco, cb_ivr |
|
|
0 |
|
224 |
377 |
14.566667 |
0 |
|
Ecology |
RAD-Seq de-novo data analysis |
https://training.galaxyproject.org//topics/ecology/tutorials/de-novo-rad-seq/tutorial.html |
|
Sequence composition calculation, Statistical calculation, Data handling, Sequencing quality control |
2017-02-14 |
2026-05-07 |
15 |
True |
False |
False |
True |
stacks_procrad, stacks_populations, fastqc, stacks_denovomap |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no |
0 |
|
2834 |
4447 |
5.316667 |
0 |
|
Ecology |
RAD-Seq to construct genetic maps |
https://training.galaxyproject.org//topics/ecology/tutorials/genetic-map-rad-seq/tutorial.html |
|
Data handling |
2017-02-14 |
2026-05-07 |
14 |
True |
False |
False |
True |
stacks_genotypes, stacks_denovomap |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
|
0 |
|
984 |
1346 |
8.633333 |
0 |
|
Ecology |
Phylodiversity analysis quick tutorial |
https://training.galaxyproject.org//topics/ecology/tutorials/phylodiversity_workflow/tutorial.html |
|
|
2025-06-06 |
2026-05-07 |
2 |
True |
False |
False |
False |
estimate_endem, phylo_index, phylogenetic_occupancy_matcher, crsconverter |
UseGalaxy.eu |
UseGalaxy.fr |
0 |
|
156 |
186 |
20.466667 |
0 |
|
Ecology |
Checking expected species and contamination in bacterial isolate |
https://training.galaxyproject.org//topics/ecology/tutorials/bacterial-isolate-species-contamination-checking/tutorial.html |
Whole genome sequencing, Genomics, Microbiology, Microbial ecology |
Cross-assembly, Expression analysis, Taxonomic classification, Statistical calculation |
2024-03-04 |
2026-04-08 |
6 |
True |
False |
False |
True |
est_abundance, kraken2, recentrifuge, upload1 |
UseGalaxy.eu, UseGalaxy.fr |
Galaxy@AuBi, GalaxyTrakr, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
1074 |
1423 |
8.600000 |
0 |
|
Ecology |
From NDVI data with OpenEO to time series visualisation with Holoviews |
https://training.galaxyproject.org//topics/ecology/tutorials/ndvi_openeo/tutorial.html |
|
|
2024-01-24 |
2024-06-29 |
3 |
True |
False |
False |
True |
interactive_tool_copernicus_notebook, interactive_tool_holoviz |
UseGalaxy.eu |
|
0 |
|
287 |
330 |
9.166667 |
0 |
|
Ecology |
Preparing genomic data for phylogeny reconstruction |
https://training.galaxyproject.org//topics/ecology/tutorials/phylogeny-data-prep/tutorial.html |
|
Sequence analysis, Sequence clustering, Multiple sequence alignment, Sequence assembly validation, Genetic variation analysis, Genome annotation |
2022-10-21 |
2025-06-03 |
5 |
True |
False |
False |
True |
repeatmasker_wrapper, collapse_dataset, regex1, funannotate_predict, clustalw, phykit_alignment_based, proteinortho_grab_proteins, clipkit, Filter1, proteinortho, tp_replace_in_line, busco, glimmer_gbk_to_orf |
UseGalaxy.be |
|
0 |
|
2510 |
3407 |
6.966667 |
0 |
|
Ecology |
Creating FAIR Quality assessment reports and draft of Data Papers from EML metadata with MetaShRIMPS |
https://training.galaxyproject.org//topics/ecology/tutorials/Metashrimps_tutorial/tutorial.html |
|
|
2024-01-22 |
2026-05-07 |
7 |
True |
False |
False |
False |
interactive_tool_metashrimps |
UseGalaxy.eu |
|
0 |
|
168 |
180 |
10.483333 |
0 |
|
Ecology |
Cleaning GBIF data for the use in Ecology |
https://training.galaxyproject.org//topics/ecology/tutorials/gbif_cleaning/tutorial.html |
|
|
2022-10-28 |
2025-06-03 |
6 |
True |
False |
False |
True |
gdal_ogr2ogr, Count1, Summary_Statistics1, spocc_occ, Filter1 |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no |
|
0 |
|
814 |
993 |
6.166667 |
0 |
|
Ecology |
Creating metadata using Ecological Metadata Language (EML) standard with EML Assembly Line functionalities |
https://training.galaxyproject.org//topics/ecology/tutorials/MetaShARK_tutorial/tutorial.html |
|
|
2024-03-04 |
2026-05-07 |
9 |
True |
False |
False |
False |
interactive_tool_metashark |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
358 |
421 |
4.866667 |
0 |
|
Ecology |
Obis marine indicators |
https://training.galaxyproject.org//topics/ecology/tutorials/obisindicators/tutorial.html |
Biodiversity, Ecology, Data mining |
|
2023-04-11 |
2026-05-19 |
10 |
True |
False |
False |
True |
tp_cut_tool, obis_data, obisindicators |
UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.fr |
0 |
|
398 |
492 |
13.366667 |
0 |
|
Ecology |
Life Traits Ecoregionalization workflow |
https://training.galaxyproject.org//topics/ecology/tutorials/ecoregiolifetraits/tutorial.html |
|
|
2025-06-02 |
2026-05-07 |
4 |
True |
False |
False |
False |
ClaraGuess, regexColumn1, tp_cut_tool, ecoregion_brt_analysis, WormsMeasurements, unzip, column_remove_by_header, ecoregion_GeoNearestNeighbor, ecoregion_eco_map, Filter1, ecoregion_taxa_seeker |
UseGalaxy.eu |
UseGalaxy.fr |
0 |
|
94 |
99 |
20.016667 |
0 |
|
Ecology |
Compute and analyze biodiversity metrics with PAMPA toolsuite |
https://training.galaxyproject.org//topics/ecology/tutorials/PAMPA-toolsuite-tutorial/tutorial.html |
|
|
2020-11-19 |
2026-05-07 |
24 |
True |
False |
True |
True |
regexColumn1, tp_cat, tp_cut_tool, pampa_presabs, regex1, mergeCols1, pampa_communitymetrics, pampa_glmsp, pampa_glmcomm, pampa_plotglm, Count1, datamash_transpose, Filter1, tp_easyjoin_tool, tp_sort_header_tool |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
1198 |
1574 |
11.133333 |
0 |
|
Ecology |
SAM3 – AI-based Semantic Segmentation of marine biodiversity Images and Videos |
https://training.galaxyproject.org//topics/ecology/tutorials/SAM3/tutorial.html |
|
|
2026-05-07 |
2026-05-12 |
3 |
True |
False |
False |
False |
sam3_semantic_segmentation, interactive_tool_anylabeling |
UseGalaxy.eu |
|
0 |
|
164 |
200 |
8.266667 |
0 |
|
Ecology |
Species distribution modeling |
https://training.galaxyproject.org//topics/ecology/tutorials/species-distribution-modeling/tutorial.html |
|
|
2019-07-04 |
2026-05-07 |
19 |
True |
False |
False |
True |
tp_find_and_replace, tp_cut_tool, tabular_to_csv, spocc_occ, Filter1, interactive_tool_wallace |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
3541 |
5253 |
3.966667 |
0 |
|
Ecology |
Marine Omics identifying biosynthetic gene clusters |
https://training.galaxyproject.org//topics/ecology/tutorials/marine_omics_bgc/tutorial.html |
|
Protein feature detection, Sequence motif recognition, Genome annotation |
2024-08-19 |
2025-06-03 |
3 |
True |
False |
False |
True |
prodigal, regex1, sanntis_marine, SanntiS_marine, interproscan |
|
|
0 |
|
320 |
359 |
12.050000 |
0 |
|
Ecology |
Regional GAM |
https://training.galaxyproject.org//topics/ecology/tutorials/regionalGAM/tutorial.html |
Ecology |
Visualisation |
2019-07-04 |
2026-05-07 |
19 |
True |
False |
False |
True |
regexColumn1, ggplot2_point, regionalgam_glmmpql, mergeCols1, regionalgam_flight_curve, flight-curve, regionalgam_plot_trend, tab2csv_R, regionalgam_autocor_acf, csv2tab_R, Remove beginning1, Count1, Paste1, tp_awk_tool, regionalgam_gls, Filter1, regionalgam_ab_index |
|
|
0 |
|
403 |
521 |
16.416667 |
0 |
|
Ecology |
Ecoregionalization workflow tutorial |
https://training.galaxyproject.org//topics/ecology/tutorials/Ecoregionalization_tutorial/tutorial.html |
|
|
2024-09-16 |
2026-05-22 |
8 |
True |
False |
False |
True |
filter_tabular, regexColumn1, tp_cut_tool, mergeCols1, ecoregion_brt_analysis, interactive_tool_jupyter_notebook, unzip, ecoregion_eco_map, ecoregion_GeoNearestNeighbor, ecoregion_clara_cluster, ecoregion_cluster_estimate, ecoregion_taxa_seeker |
UseGalaxy.eu |
|
0 |
|
470 |
584 |
8.150000 |
0 |
|
Ecology |
Visualization of Climate Data using NetCDF xarray Map Plotting |
https://training.galaxyproject.org//topics/ecology/tutorials/x-array-map-plot/tutorial.html |
|
|
2022-10-26 |
2024-06-27 |
9 |
True |
False |
False |
True |
cdo_operations, xarray_metadata_info, xarray_coords_info, graphicsmagick_image_montage, xarray_mapplot |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz |
0 |
|
2624 |
3011 |
2.066667 |
0 |
|
Ecology |
Metabarcoding/eDNA through Obitools |
https://training.galaxyproject.org//topics/ecology/tutorials/Obitools-metabarcoding/tutorial.html |
|
Statistical calculation, Sequence composition calculation, Sequencing quality control |
2022-02-28 |
2026-05-07 |
13 |
True |
False |
True |
True |
fastq_groomer, obi_annotate, obi_uniq, obi_ngsfilter, unzip, wc_gnu, Cut1, obi_grep, seq_filter_by_id, join1, obi_illumina_pairend, fastqc, obi_stat, Filter1, ncbi_blastn_wrapper, obi_clean, obi_tab |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
5106 |
7027 |
3.900000 |
0 |
|
Ecology |
Data submission using ENA upload Tool |
https://training.galaxyproject.org//topics/ecology/tutorials/ENA_Biodiv_submission/tutorial.html |
|
Read pre-processing, Read mapping, Primer removal, Sequence trimming, Visualisation, Validation, Sequencing quality control |
2024-12-13 |
2026-05-07 |
3 |
True |
False |
False |
False |
fastq_groomer, regex1, multiqc, cutadapt, collection_element_identifiers, ab1_fastq_converter, fastq_filter, __FILTER_EMPTY_DATASETS__, Paste1, fastq_to_fasta_python, falco, __RELABEL_FROM_FILE__, ncbi_blastn_wrapper, bg_uniq |
UseGalaxy.eu |
UseGalaxy.cz |
0 |
|
422 |
445 |
5.566667 |
0 |
|
Ecology |
Taxonomic Analysis of eDNA |
https://training.galaxyproject.org//topics/ecology/tutorials/eDNA-taxonomic-analysis/tutorial.html |
|
Sequencing quality control, Sequence contamination filtering |
2025-06-02 |
2026-05-07 |
3 |
True |
False |
False |
True |
Count1, cshl_fastq_to_fasta, ncbi_blastn_wrapper, fastp |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.no |
0 |
|
794 |
968 |
4.850000 |
0 |
|
Ecology |
Biodiversity data exploration |
https://training.galaxyproject.org//topics/ecology/tutorials/biodiversity-data-exploration/tutorial.html |
|
|
2022-03-01 |
2026-04-24 |
16 |
True |
False |
True |
True |
regexColumn1, tp_cut_tool, ecology_beta_diversity, ecology_homogeneity_normality, Remove beginning1, tool_anonymization, ecology_presence_abs_abund, ecology_link_between_var, ecology_stat_presence_abs |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
1832 |
2531 |
11.016667 |
0 |
|
Ecology |
Audio data annotation with NEAL (Nature + Energy Audio labeler) |
https://training.galaxyproject.org//topics/ecology/tutorials/NEAL_tutorial/tutorial.html |
|
|
2025-10-14 |
2025-11-06 |
3 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
128 |
147 |
6.883333 |
0 |
|
Ecology |
QGIS Web Feature Services |
https://training.galaxyproject.org//topics/ecology/tutorials/QGIS_Web_Feature_Services/tutorial.html |
|
|
2023-10-11 |
2026-05-07 |
7 |
True |
False |
False |
False |
interactive_tool_qgis |
UseGalaxy.eu |
|
0 |
|
384 |
434 |
9.616667 |
0 |
|
Ecology |
Visualize EBV cube data with Panoply netCDF viewer |
https://training.galaxyproject.org//topics/ecology/tutorials/panoply_ebv/tutorial.html |
|
|
2022-10-28 |
2026-05-07 |
10 |
True |
False |
False |
False |
interactive_tool_panoply |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
332 |
399 |
9.750000 |
0 |
|
Ecology |
Cleaning GBIF data using OpenRefine |
https://training.galaxyproject.org//topics/ecology/tutorials/openrefine_gbif/tutorial.html |
|
|
2025-01-21 |
2026-05-07 |
7 |
True |
False |
False |
False |
interactive_tool_openrefine, regex1 |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
282 |
335 |
7.633333 |
0 |
|
Ecology |
Object detection with YOLO |
https://training.galaxyproject.org//topics/ecology/tutorials/yolo_predict_deepsea/tutorial.html |
|
|
2026-05-06 |
2026-05-08 |
3 |
True |
False |
False |
True |
yolo_training, yolo_predict, unzip |
UseGalaxy.eu |
|
0 |
|
85 |
103 |
14.466667 |
0 |
|
Teaching and Hosting Galaxy training |
Train-the-Trainer: putting it all together |
https://training.galaxyproject.org//topics/teaching/tutorials/workshop-final-exercise/tutorial.html |
|
|
2023-06-12 |
2025-03-11 |
3 |
True |
False |
False |
False |
|
|
|
0 |
|
146 |
168 |
17.850000 |
0 |
|
Teaching and Hosting Galaxy training |
Motivation and Demotivation |
https://training.galaxyproject.org//topics/teaching/tutorials/motivation_demotivation/tutorial.html |
|
|
2022-09-23 |
2025-03-11 |
11 |
True |
False |
False |
False |
|
|
|
0 |
|
2068 |
2459 |
2.283333 |
0 |
|
Teaching and Hosting Galaxy training |
Assessment and feedback in training and teachings |
https://training.galaxyproject.org//topics/teaching/tutorials/assessment/tutorial.html |
|
|
2022-09-23 |
2025-03-11 |
11 |
True |
False |
False |
False |
|
|
|
0 |
|
1429 |
1653 |
4.750000 |
0 |
|
Teaching and Hosting Galaxy training |
Training techniques to enhance learner participation and engagement |
https://training.galaxyproject.org//topics/teaching/tutorials/learner_participation_engagement/tutorial.html |
|
|
2022-09-23 |
2025-03-11 |
14 |
True |
False |
False |
False |
|
|
|
0 |
|
1770 |
2075 |
2.983333 |
0 |
|
Statistics and machine learning |
Pretraining a Large Language Model (LLM) from Scratch on DNA Sequences |
https://training.galaxyproject.org//topics/statistics/tutorials/genomic-llm-pretraining/tutorial.html |
|
|
2025-04-17 |
2025-05-22 |
4 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2129 |
2676 |
3.466667 |
0 |
|
Statistics and machine learning |
Foundational Aspects of Machine Learning using Python |
https://training.galaxyproject.org//topics/statistics/tutorials/intro-to-ml-with-python/tutorial.html |
|
|
2025-03-11 |
2025-05-19 |
3 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1261 |
1547 |
5.666667 |
0 |
|
Statistics and machine learning |
Fine-tuning a LLM for DNA Sequence Classification |
https://training.galaxyproject.org//topics/statistics/tutorials/genomic-llm-finetuning/tutorial.html |
|
|
2025-04-17 |
2025-05-22 |
4 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1195 |
1498 |
3.166667 |
0 |
|
Statistics and machine learning |
Neural networks using Python |
https://training.galaxyproject.org//topics/statistics/tutorials/neural-networks-with-python/tutorial.html |
|
|
2025-03-11 |
2025-03-11 |
1 |
True |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1573496 |
2763366 |
12.800000 |
0 |
|
Statistics and machine learning |
Predicting Mutation Impact with Zero-shot Learning using a pretrained DNA LLM |
https://training.galaxyproject.org//topics/statistics/tutorials/genomic-llm-zeroshot-prediction/tutorial.html |
|
|
2025-04-17 |
2025-05-22 |
4 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
424 |
496 |
6.433333 |
0 |
|
Statistics and machine learning |
Deep Learning (without Generative Artificial Intelligence) using Python |
https://training.galaxyproject.org//topics/statistics/tutorials/deep-learning-without-gai-with-python/tutorial.html |
|
|
2025-03-11 |
2025-03-11 |
1 |
True |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1573492 |
2763361 |
13.383333 |
0 |
|
Statistics and machine learning |
Generating Artificial Yeast DNA Sequences using a DNA LLM |
https://training.galaxyproject.org//topics/statistics/tutorials/genomic-llm-sequence-generation/tutorial.html |
|
|
2025-04-17 |
2025-05-22 |
4 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
322 |
363 |
5.466667 |
0 |
|
Statistics and machine learning |
Optimizing DNA Sequences for Biological Functions using a DNA LLM |
https://training.galaxyproject.org//topics/statistics/tutorials/genomic-llm-sequence-optimization/tutorial.html |
|
|
2025-04-17 |
2025-05-22 |
2 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
80 |
96 |
12.933333 |
0 |
|
Statistics and machine learning |
Regulations/standards for AI using DOME |
https://training.galaxyproject.org//topics/statistics/tutorials/dome/tutorial.html |
|
|
2025-03-11 |
2025-05-19 |
3 |
True |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1573583 |
2763467 |
10.866667 |
0 |
|
Epigenetics |
Formation of the Super-Structures on the Inactive X |
https://training.galaxyproject.org//topics/epigenetics/tutorials/formation_of_super-structures_on_xi/tutorial.html |
|
Genome visualisation, Sequence composition calculation, Gene regulatory network analysis, Primer removal, Peak calling, Sequence trimming, Enrichment analysis, Structure visualisation, Pathway visualisation, Read pre-processing, Mapping, Sequencing quality control, Statistical calculation, Read mapping |
2018-09-17 |
2026-04-13 |
16 |
True |
True |
False |
True |
deeptools_bam_coverage, cat1, samtools_idxstats, jbrowse2, deeptools_bam_compare, deeptools_multi_bam_summary, deeptools_plot_correlation, bedtools_sortbed, macs2_callpeak, deeptools_compute_matrix, bbgtobigwig, deeptools_plot_fingerprint, bedtools_mergebed, deeptools_plot_heatmap, __FLATTEN__, bowtie2, trim_galore, fastqc, Filter1 |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
3950295 |
9292803 |
9.450000 |
0 |
|
Epigenetics |
DNA Methylation data analysis |
https://training.galaxyproject.org//topics/epigenetics/tutorials/methylation-seq/tutorial.html |
Epigenomics |
Sequence composition calculation, Read mapping, Statistical calculation, Visualisation, Sequencing quality control |
2017-02-16 |
2025-04-03 |
24 |
True |
False |
False |
True |
wig_to_bigWig, metilene, replace_column_with_key_value_file, pileometh, tp_tail_tool, tp_awk_tool, fastqc, deeptools_compute_matrix, falco, bwameth, deeptools_plot_profile |
|
|
0 |
|
16322 |
26585 |
4.633333 |
0 |
|
Epigenetics |
Hi-C analysis of Drosophila melanogaster cells using HiCExplorer |
https://training.galaxyproject.org//topics/epigenetics/tutorials/hicexplorer/tutorial.html |
|
Visualisation, Formatting, Read mapping |
2018-02-23 |
2026-03-16 |
31 |
True |
False |
False |
True |
hicexplorer_hicdetectloops, hicexplorer_hicfindrestrictionsites, hicexplorer_hicplotmatrix, hicexplorer_hicbuildmatrix, bowtie2, pygenomeTracks, hicexplorer_hicinfo, hicexplorer_hicfindtads, hicexplorer_hicmergematrixbins, hicexplorer_hicpca, hicexplorer_hiccorrectmatrix |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
8182 |
13406 |
3.766667 |
0 |
|
Epigenetics |
ATAC-Seq data analysis |
https://training.galaxyproject.org//topics/epigenetics/tutorials/atac-seq/tutorial.html |
|
Sequence alignment analysis, Sequence composition calculation, Gene regulatory network analysis, Primer removal, Peak calling, Sequence trimming, Enrichment analysis, Read pre-processing, Mapping, Sequencing quality control, Statistical calculation, Data handling, Visualisation, Formatting, Read mapping |
2019-09-02 |
2025-12-18 |
24 |
True |
True |
True |
True |
cutadapt, pe_histogram, samtools_idxstats, wig_to_bigWig, Grep1, picard_MarkDuplicates, tp_sort_header_tool, macs2_callpeak, Cut1, pygenomeTracks, deeptools_compute_matrix, bedtools_intersectbed, bamFilter, deeptools_plot_heatmap, __FLATTEN__, bowtie2, fastqc, bedtools_bamtobed, Filter1 |
|
|
0 |
|
4012650 |
9401869 |
4.866667 |
0 |
|
Epigenetics |
Identification of the binding sites of the Estrogen receptor |
https://training.galaxyproject.org//topics/epigenetics/tutorials/estrogen-receptor-binding-site-identification/tutorial.html |
|
Sequence composition calculation, Gene regulatory network analysis, Primer removal, Peak calling, Sequence trimming, Enrichment analysis, Read pre-processing, Sequencing quality control, Statistical calculation, Read mapping |
2017-09-18 |
2025-04-08 |
10 |
True |
False |
False |
True |
deeptools_bam_coverage, macs2_callpeak, deeptools_plot_heatmap, deeptools_bam_compare, bowtie2, trim_galore, fastqc, deeptools_compute_gc_bias, deeptools_multi_bam_summary, deeptools_compute_matrix, deeptools_plot_fingerprint, bam_to_sam, deeptools_plot_correlation, samtools_idxstats |
UseGalaxy.be |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
2092 |
3031 |
6.933333 |
0 |
|
Epigenetics |
CUT&RUN data analysis |
https://training.galaxyproject.org//topics/epigenetics/tutorials/cut_and_run/tutorial.html |
|
Sequence alignment analysis, Formatting, Gene regulatory network analysis, Primer removal, Peak calling, Sequence trimming, Enrichment analysis, Sequencing quality control, Mapping, Read pre-processing, Data handling, Visualisation, Validation, Read mapping |
2024-03-06 |
2025-03-19 |
5 |
True |
False |
False |
True |
Extract genomic DNA 1, pe_histogram, meme_chip, wig_to_bigWig, Grep1, idr, __EXTRACT_DATASET__, picard_MarkDuplicates, macs2_callpeak, datamash_transpose, deeptools_compute_matrix, deeptools_plot_fingerprint, bedtools_intersectbed, multiqc, bamFilter, deeptools_plot_heatmap, __FLATTEN__, bowtie2, trim_galore, bedtools_bamtobed, falco |
|
|
0 |
|
8385 |
10601 |
2.400000 |
0 |
|
Epigenetics |
Infinium Human Methylation BeadChip |
https://training.galaxyproject.org//topics/epigenetics/tutorials/ewas-suite/tutorial.html |
|
|
2018-08-27 |
2024-10-15 |
21 |
True |
True |
False |
True |
chipeakanno_annopeaks, clusterprofiler_go, Cut1, Remove beginning1, clusterprofiler_bitr, minfi_analysis |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
|
0 |
|
3945997 |
9283667 |
8.900000 |
0 |
|
Epigenetics |
Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1) |
https://training.galaxyproject.org//topics/epigenetics/tutorials/tal1-binding-site-identification/tutorial.html |
ChIP-seq |
Sequence composition calculation, Generation, Gene regulatory network analysis, Genome indexing, Peak calling, Enrichment analysis, Sequencing quality control, Mapping, Statistical calculation, Sequence alignment, Read mapping |
2016-12-20 |
2025-04-08 |
11 |
True |
False |
False |
True |
bedtools_intersectbed, deeptools_correct_gc_bias, macs2_callpeak, bwa, trimmomatic, deeptools_plot_heatmap, deeptools_bam_compare, fastqc, deeptools_compute_gc_bias, deeptools_multi_bam_summary, deeptools_compute_matrix, deeptools_plot_fingerprint, deeptools_plot_correlation, samtools_idxstats |
UseGalaxy.be, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
7852 |
14247 |
7.350000 |
0 |
|
Epigenetics |
Introduction to DNA Methylation data analysis |
https://training.galaxyproject.org//topics/epigenetics/tutorials/introduction-dna-methylation/slides.html |
|
|
2016-10-05 |
2024-03-05 |
2 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943740 |
9280193 |
2.083333 |
0 |
|
Epigenetics |
Introduction to ChIP-Seq data analysis |
https://training.galaxyproject.org//topics/epigenetics/tutorials/introduction-chip-seq/slides.html |
|
|
2017-06-12 |
2024-03-05 |
2 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943740 |
9280193 |
2.083333 |
0 |
|
Evolution |
Phylogenetics - Back to basics |
https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo/tutorial.html |
|
Multiple sequence alignment, Sequence analysis, Phylogenetic tree analysis, Phylogenetic analysis, Phylogenetic tree reconstruction, Phylogenetic tree generation |
2024-05-10 |
2024-05-10 |
1 |
True |
False |
False |
True |
newick_display, fasttree, rbc_mafft, iqtree |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
7682 |
9807 |
3.783333 |
0 |
|
Evolution |
Tree thinking for tuberculosis evolution and epidemiology |
https://training.galaxyproject.org//topics/evolution/tutorials/mtb_phylogeny/tutorial.html |
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12 |
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True |
interactive_tool_rstudio, upload1, raxml |
UseGalaxy.eu |
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8.100000 |
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Identifying tuberculosis transmission links: from SNPs to transmission clusters |
https://training.galaxyproject.org//topics/evolution/tutorials/mtb_transmission/tutorial.html |
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Phylogenetic tree generation, Phylogenetic tree visualisation, Variant calling, Antimicrobial resistance prediction |
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2025-05-26 |
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UseGalaxy.eu |
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3777 |
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7.800000 |
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Evolution |
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https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo-intro/slides.html |
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2024-05-10 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2031026 |
3901496 |
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Phylogenetic analysis for bacterial comparative genomics |
https://training.galaxyproject.org//topics/evolution/tutorials/bacterial-comparative-genomics/tutorial.html |
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2025-03-14 |
2025-03-14 |
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Galaxy@AuBi, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
GalaxyTrakr |
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226 |
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13.283333 |
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Evolution |
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https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo-terminology/slides.html |
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2024-05-10 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2031026 |
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Evolution |
Phylogenetics - Back to Basics - Multiple Sequence Alignment |
https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo-msa/slides.html |
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2024-05-10 |
2024-05-10 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2031026 |
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Evolution |
Phylogenetics - Back to Basics - Building Trees |
https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo-trees/slides.html |
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2024-05-10 |
2024-05-10 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2031026 |
3901496 |
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Evolution |
Phylogenetics - Back to Basics - Estimating trees from alignments |
https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo-mle-trees/slides.html |
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2024-05-10 |
2024-05-10 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2031026 |
3901496 |
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Evolution |
Phylogenetics - Back to Basics - Phylogenetic Networks |
https://training.galaxyproject.org//topics/evolution/tutorials/abc_intro_phylo-networks/slides.html |
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2024-05-10 |
2024-05-10 |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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2031026 |
3901496 |
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FAIR Data, Workflows, and Research |
Data management in Medicinal Chemistry |
https://training.galaxyproject.org//topics/fair/tutorials/med-chem-data/tutorial.html |
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2026-07-12 |
2026-07-12 |
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UseGalaxy.be, UseGalaxy.no |
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FAIR Data, Workflows, and Research |
An earth-system RO-Crate |
https://training.galaxyproject.org//topics/fair/tutorials/earth_system_rocrate/slides.html |
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2024-12-02 |
2024-12-02 |
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False |
True |
True |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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1723324 |
3131799 |
1.450000 |
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FAIR Data, Workflows, and Research |
Integrating InvenioRDM-compatible Repositories with Galaxy |
https://training.galaxyproject.org//topics/fair/tutorials/inveniordm-integration/tutorial.html |
|
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2025-11-06 |
2025-11-06 |
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True |
False |
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False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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96 |
103 |
6.583333 |
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FAIR Data, Workflows, and Research |
Uploading Data to Zenodo from Galaxy |
https://training.galaxyproject.org//topics/fair/tutorials/zenodo-in-galaxy/tutorial.html |
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2025-11-06 |
2025-11-06 |
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True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
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125 |
128 |
15.883333 |
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FAIR Data, Workflows, and Research |
Making clinical datasets FAIR |
https://training.galaxyproject.org//topics/fair/tutorials/fair-clinical/tutorial.html |
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2023-10-24 |
2024-09-13 |
5 |
True |
False |
True |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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438 |
550 |
8.816667 |
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FAIR Data, Workflows, and Research |
RO-Crate - Introduction |
https://training.galaxyproject.org//topics/fair/tutorials/ro-crate-intro/tutorial.html |
|
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2023-05-23 |
2025-04-08 |
5 |
True |
False |
True |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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750 |
956 |
6.750000 |
0 |
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FAIR Data, Workflows, and Research |
Sequence data submission to ENA |
https://training.galaxyproject.org//topics/fair/tutorials/fair-ena/tutorial.html |
|
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2023-11-01 |
2024-06-25 |
5 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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823 |
950 |
3.183333 |
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FAIR Data, Workflows, and Research |
FAIR and its Origins |
https://training.galaxyproject.org//topics/fair/tutorials/fair-origin/tutorial.html |
|
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2024-03-26 |
2024-03-27 |
2 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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228 |
254 |
7.350000 |
0 |
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FAIR Data, Workflows, and Research |
Workflow Run RO-Crate Introduction |
https://training.galaxyproject.org//topics/fair/tutorials/ro-crate-workflow-run-ro-crate/tutorial.html |
|
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2023-05-11 |
2023-05-11 |
1 |
True |
False |
False |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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480 |
581 |
5.266667 |
0 |
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FAIR Data, Workflows, and Research |
Introduction to Data Management Plan (DMP) for Peatland Research and PeatDataHub |
https://training.galaxyproject.org//topics/fair/tutorials/data-management-peatlands/tutorial.html |
|
|
2024-09-13 |
2024-09-13 |
1 |
True |
False |
True |
False |
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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152 |
186 |
6.150000 |
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FAIR Data, Workflows, and Research |
FAIR in a nutshell |
https://training.galaxyproject.org//topics/fair/tutorials/fair-intro/tutorial.html |
|
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2023-05-30 |
2024-04-30 |
6 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1092 |
1366 |
8.050000 |
0 |
|
FAIR Data, Workflows, and Research |
DataPLANT ARCs |
https://training.galaxyproject.org//topics/fair/tutorials/dataplant-arcs/tutorial.html |
|
|
2024-10-22 |
2025-09-17 |
4 |
True |
True |
True |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
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1784805 |
3276312 |
7.050000 |
0 |
|
FAIR Data, Workflows, and Research |
RO-Crate in Python |
https://training.galaxyproject.org//topics/fair/tutorials/ro-crate-in-python/tutorial.html |
|
|
2023-05-11 |
2025-04-08 |
5 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
331 |
366 |
6.383333 |
0 |
|
FAIR Data, Workflows, and Research |
Exporting Workflow Run RO-Crates from Galaxy |
https://training.galaxyproject.org//topics/fair/tutorials/ro-crate-in-galaxy/tutorial.html |
|
|
2023-05-11 |
2024-08-26 |
8 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
366 |
435 |
12.500000 |
0 |
|
FAIR Data, Workflows, and Research |
FAIR data management solutions |
https://training.galaxyproject.org//topics/fair/tutorials/data-management/tutorial.html |
|
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2023-05-30 |
2025-01-16 |
5 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
479 |
572 |
9.400000 |
0 |
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FAIR Data, Workflows, and Research |
Metadata |
https://training.galaxyproject.org//topics/fair/tutorials/fair-metadata/tutorial.html |
|
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2024-03-26 |
2024-03-27 |
2 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
318 |
365 |
6.483333 |
0 |
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FAIR Data, Workflows, and Research |
Data Registration |
https://training.galaxyproject.org//topics/fair/tutorials/fair-data-registration/tutorial.html |
|
|
2024-03-26 |
2024-09-27 |
3 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
141 |
148 |
8.566667 |
0 |
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FAIR Data, Workflows, and Research |
FAIR Galaxy Training Material |
https://training.galaxyproject.org//topics/fair/tutorials/fair-gtn/tutorial.html |
|
|
2023-05-30 |
2024-03-27 |
5 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
226 |
263 |
10.983333 |
0 |
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FAIR Data, Workflows, and Research |
Best practices for workflows in GitHub repositories |
https://training.galaxyproject.org//topics/fair/tutorials/ro-crate-galaxy-best-practices/tutorial.html |
|
|
2023-05-11 |
2025-04-08 |
6 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
494 |
564 |
9.350000 |
0 |
|
FAIR Data, Workflows, and Research |
FAIR Bioimage Metadata |
https://training.galaxyproject.org//topics/fair/tutorials/bioimage-metadata/tutorial.html |
|
|
2023-09-13 |
2025-11-27 |
7 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
427 |
498 |
10.916667 |
0 |
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FAIR Data, Workflows, and Research |
Submitting workflows to LifeMonitor |
https://training.galaxyproject.org//topics/fair/tutorials/ro-crate-submitting-life-monitor/tutorial.html |
|
|
2023-05-11 |
2024-09-26 |
4 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
116 |
134 |
11.600000 |
0 |
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FAIR Data, Workflows, and Research |
Access |
https://training.galaxyproject.org//topics/fair/tutorials/fair-access/tutorial.html |
|
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2024-03-26 |
2024-03-27 |
2 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
160 |
172 |
8.933333 |
0 |
|
FAIR Data, Workflows, and Research |
REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data |
https://training.galaxyproject.org//topics/fair/tutorials/bioimage-REMBI/tutorial.html |
|
|
2023-09-13 |
2025-11-27 |
9 |
True |
False |
True |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
459 |
524 |
8.250000 |
0 |
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FAIR Data, Workflows, and Research |
Persistent Identifiers |
https://training.galaxyproject.org//topics/fair/tutorials/fair-persistent-identifiers/tutorial.html |
|
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2024-03-26 |
2024-03-27 |
2 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
371 |
443 |
4.950000 |
0 |
|
FAIR Data, Workflows, and Research |
FAIRification of an RNAseq dataset |
https://training.galaxyproject.org//topics/fair/tutorials/fair-rna/tutorial.html |
|
|
2024-03-27 |
2026-05-28 |
2 |
True |
False |
False |
False |
|
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UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
386 |
468 |
8.333333 |
0 |
|
Using Galaxy and Managing your Data |
Workflow Reports |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/workflow-reports/tutorial.html |
|
Visualisation |
2022-06-02 |
2024-06-14 |
9 |
True |
False |
True |
True |
ggplot2_point, tp_sorted_uniq, Cut1, Remove beginning1, upload1, datamash_ops, Grouping1, csv_to_tabular |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
Galaxy@AuBi, MISSISSIPPI, UseGalaxy.cz |
0 |
|
1016 |
1365 |
9.233333 |
0 |
|
Using Galaxy and Managing your Data |
Creating, Editing and Importing Galaxy Workflows |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/workflow-editor/tutorial.html |
|
|
2020-07-17 |
2023-11-09 |
12 |
True |
False |
False |
True |
Show beginning1, tp_tac, Paste1 |
Galaxy@AuBi, GalaxyTrakr, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
HyPhy HIV NGS Tools, MISSISSIPPI |
0 |
|
6536 |
8087 |
7.316667 |
0 |
|
Using Galaxy and Managing your Data |
Using Workflow Parameters |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/workflow-parameters/tutorial.html |
|
|
2019-06-27 |
2024-06-14 |
15 |
True |
False |
True |
True |
tp_head_tool |
Galaxy@AuBi, GalaxyTrakr, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
HyPhy HIV NGS Tools, MISSISSIPPI |
0 |
|
2156 |
2728 |
8.750000 |
0 |
|
Using Galaxy and Managing your Data |
InterMine integration with Galaxy |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/intermine/tutorial.html |
|
|
2020-12-09 |
2024-02-29 |
9 |
True |
False |
False |
True |
galaxy_intermine_exchange, intermine |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no |
|
0 |
|
259 |
325 |
21.983333 |
0 |
|
Using Galaxy and Managing your Data |
Galaxy workflows in Dockstore |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/galaxy-on-dockstore/slides.html |
|
|
2022-01-14 |
2022-10-27 |
4 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3395876 |
7444213 |
1.966667 |
0 |
|
Using Galaxy and Managing your Data |
Getting data into Galaxy |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/get-data/slides.html |
|
|
2017-05-24 |
2022-10-18 |
4 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943740 |
9280193 |
2.083333 |
0 |
|
Using Galaxy and Managing your Data |
Onedata user-owned storage |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/onedata-byos/tutorial.html |
|
|
2025-03-24 |
2025-04-08 |
3 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
200 |
232 |
13.100000 |
0 |
|
Using Galaxy and Managing your Data |
Searching Your History |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/search/tutorial.html |
|
|
2020-07-15 |
2023-11-16 |
4 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
493 |
716 |
18.300000 |
0 |
|
Using Galaxy and Managing your Data |
RStudio in Galaxy |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/rstudio/tutorial.html |
|
|
2019-10-08 |
2026-02-25 |
16 |
True |
False |
False |
False |
interactive_tool_rstudio |
UseGalaxy.eu |
|
0 |
|
5643 |
8741 |
7.866667 |
0 |
|
Using Galaxy and Managing your Data |
Using dataset collections |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/collections/tutorial.html |
|
Genome indexing, Generation, Sequence alignment, Read mapping |
2016-09-30 |
2024-12-05 |
20 |
True |
False |
True |
False |
snpSift_extractFields, bwa_mem, collapse_dataset, lofreq_call |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
GalaxyTrakr, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
17355 |
23523 |
8.633333 |
0 |
|
Using Galaxy and Managing your Data |
Group tags for complex experimental designs |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/group-tags/tutorial.html |
|
|
2019-03-06 |
2023-11-09 |
11 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2938 |
3923 |
10.383333 |
0 |
|
Using Galaxy and Managing your Data |
Creating high resolution images of Galaxy Workflows |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/workflow-posters/tutorial.html |
|
|
2024-02-05 |
2025-04-08 |
3 |
True |
False |
False |
False |
graphicsmagick_image_convert |
UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no |
0 |
|
384 |
463 |
15.400000 |
0 |
|
Using Galaxy and Managing your Data |
Getting started with Onedata distributed storage |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/onedata-getting-started/tutorial.html |
|
|
2025-03-24 |
2025-04-08 |
2 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
313 |
418 |
11.966667 |
0 |
|
Using Galaxy and Managing your Data |
Exporting to Onedata remote |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/onedata-remote-export/tutorial.html |
|
|
2025-03-24 |
2025-04-08 |
2 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
120 |
132 |
19.183333 |
0 |
|
Using Galaxy and Managing your Data |
Use Jupyter notebooks in Galaxy |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/galaxy-intro-jupyter/tutorial.html |
|
|
2018-07-02 |
2025-12-17 |
11 |
True |
False |
True |
False |
interactive_tool_jupyter_notebook |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
2986 |
3929 |
8.516667 |
0 |
|
Using Galaxy and Managing your Data |
Rule Based Uploader: Advanced |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/upload-rules-advanced/tutorial.html |
|
|
2018-05-25 |
2024-06-14 |
11 |
True |
False |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
926 |
1229 |
15.483333 |
0 |
|
Using Galaxy and Managing your Data |
Rule Based Uploader |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/upload-rules/tutorial.html |
|
|
2020-07-04 |
2024-06-14 |
11 |
True |
False |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
5970 |
7645 |
10.233333 |
0 |
|
Using Galaxy and Managing your Data |
Understanding Galaxy history system |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/history/tutorial.html |
|
|
2017-02-20 |
2025-04-28 |
12 |
True |
False |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
6051 |
7711 |
10.066667 |
0 |
|
Using Galaxy and Managing your Data |
Importing (uploading) data from Onedata |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/onedata-remote-import/tutorial.html |
|
|
2025-03-24 |
2025-04-08 |
2 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
413 |
528 |
12.750000 |
0 |
|
Using Galaxy and Managing your Data |
Name tags for following complex histories |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/name-tags/tutorial.html |
|
|
2019-04-08 |
2023-11-09 |
8 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1851 |
2437 |
11.833333 |
0 |
|
Using Galaxy and Managing your Data |
Extracting Workflows from Histories |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/history-to-workflow/tutorial.html |
|
|
2017-10-18 |
2024-12-02 |
8 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3249 |
4175 |
10.400000 |
0 |
|
Using Galaxy and Managing your Data |
Annotate, prepare tests and publish Galaxy workflows in workflow registries |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/workflow-fairification/tutorial.html |
|
Read mapping, Visualisation, Validation, Sequencing quality control |
2025-05-26 |
2025-05-26 |
1 |
True |
False |
False |
False |
falco, multiqc |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
GalaxyTrakr |
0 |
|
465 |
544 |
8.466667 |
0 |
|
Using Galaxy and Managing your Data |
JupyterLab in Galaxy |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/jupyterlab/tutorial.html |
|
|
2020-03-05 |
2025-04-25 |
9 |
True |
False |
False |
False |
interactive_tool_jupyter_notebook |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
2302 |
3618 |
9.666667 |
0 |
|
Using Galaxy and Managing your Data |
Downloading and Deleting Data in Galaxy |
https://training.galaxyproject.org//topics/galaxy-interface/tutorials/download-delete-data/tutorial.html |
|
|
2019-10-17 |
2026-01-23 |
7 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
8051 |
10578 |
4.350000 |
0 |
|
Genome Annotation |
Genome annotation with Prokka |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/annotation-with-prokka/tutorial.html |
Genomics, Microbiology, Gene and protein families, Sequence analysis |
Genome visualisation, Gene prediction, Genome annotation, Coding region prediction |
2018-03-06 |
2026-01-23 |
27 |
True |
True |
True |
True |
prokka, jbrowse |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3963596 |
9313303 |
7.166667 |
0 |
|
Genome Annotation |
Secondary metabolite discovery |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/secondary-metabolite-discovery/tutorial.html |
|
Service invocation, Differential gene expression analysis, Sequence clustering, Gene prediction, Data handling |
2024-02-21 |
2024-09-27 |
2 |
True |
False |
False |
True |
collapse_dataset, antismash, interactive_tool_jupyter_notebook, ctb_np-likeness-calculator, ctb_chemfp_mol2fps, ctb_silicos_qed, Remove beginning1, ctb_simsearch, ncbi_acc_download, tp_awk_tool, openbabel_remDuplicates, edu.tamu.cpt.gff3.customGbkToGff, bp_genbank2gff3 |
UseGalaxy.eu |
|
0 |
|
976 |
1207 |
3.816667 |
0 |
|
Genome Annotation |
From small to large-scale genome comparison |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/hpc-for-lsgc/tutorial.html |
|
Multiple sequence alignment |
2021-02-08 |
2024-07-31 |
8 |
True |
True |
False |
True |
chromeister, clustalw, tp_awk_tool, gecko |
UseGalaxy.org.au, UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.cz |
0 |
|
3899691 |
9120389 |
9.816667 |
0 |
|
Genome Annotation |
Genome annotation with Helixer |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/helixer/tutorial.html |
Biodiversity, Genomics, Zoology, Plant biology |
Genome visualisation, Sequence annotation, Sequence assembly validation, Gene prediction, Differential protein expression profiling, Genome annotation |
2024-08-21 |
2025-06-04 |
8 |
True |
False |
False |
True |
omark, helixer, jbrowse, gffread, jcvi_gff_stats, busco |
|
|
0 |
|
1779 |
2096 |
6.650000 |
0 |
|
Genome Annotation |
Bacterial Genome Annotation |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/bacterial-genome-annotation/tutorial.html |
Genomics, Microbiology, Gene and protein families, Sequence analysis, Whole genome sequencing, Functional genomics, Mobile genetic elements |
Genome visualisation, Protein feature detection, Sequence motif recognition, Genome assembly, Nucleic acid feature detection, Structural variation detection, Scaffolding, Genome annotation, Multilocus sequence typing |
2024-02-01 |
2024-10-15 |
6 |
True |
False |
True |
True |
bakta, integron_finder, tp_replace_in_column, plasmidfinder, tp_tail_tool, upload1, jbrowse, Grouping1, tbl2gff3, isescan |
UseGalaxy.eu, UseGalaxy.fr |
Galaxy@AuBi, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
8932 |
12223 |
7.916667 |
0 |
|
Genome Annotation |
Genome annotation with Braker3 |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/braker3/tutorial.html |
Sequence assembly, Genomics, Biodiversity, Zoology, Plant biology |
Genome visualisation, Sequence annotation, Sequence assembly validation, Gene prediction, Differential protein expression profiling, Genome annotation, Sequence alignment |
2025-03-17 |
2025-06-20 |
4 |
True |
False |
False |
True |
omark, braker3, jbrowse, gffread, rna_star, fasta-stats, busco |
|
|
0 |
|
2357 |
2834 |
4.850000 |
0 |
|
Genome Annotation |
Masking repeats with RepeatMasker |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/repeatmasker/tutorial.html |
Sequence composition, complexity and repeats, Genomics |
RNA-Seq analysis, Editing, Repeat sequence detection, Genome annotation, Mapping |
2021-11-29 |
2025-06-03 |
22 |
True |
False |
True |
True |
red, repeatmasker_wrapper, repeatmodeler, bedtools_maskfastabed |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
11303 |
14262 |
4.200000 |
0 |
|
Genome Annotation |
Comparison of two annotation tools - Helixer and Braker3 |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/comparison-braker-helixer-annotation/tutorial.html |
Sequence assembly, Genomics |
Genome visualisation, Sequence annotation, Sequence assembly validation, Gene prediction, Differential protein expression profiling, Genome annotation, Sequence alignment |
2025-06-20 |
2025-06-25 |
2 |
True |
False |
False |
True |
omark, braker3, helixer, jbrowse, gffread, rna_star, busco |
|
|
0 |
|
859 |
989 |
7.133333 |
0 |
|
Genome Annotation |
Refining Genome Annotations with Apollo (prokaryotes) |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/apollo/tutorial.html |
Genomics, Microbiology, Gene and protein families, Sequence analysis |
Genome visualisation |
2021-06-04 |
2025-05-15 |
22 |
True |
True |
True |
True |
create_or_update, list_organism, create_account, jbrowse, iframe |
|
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
3719245 |
8504183 |
13.233333 |
0 |
|
Genome Annotation |
Identification of AMR genes in an assembled bacterial genome |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/amr-gene-detection/tutorial.html |
Whole genome sequencing, Public health and epidemiology, Genomics, Microbiology, Sequence analysis, Infectious disease, Antimicrobial resistance |
Genome visualisation, Genome annotation, Read mapping, Antimicrobial resistance prediction |
2024-01-23 |
2025-12-18 |
10 |
True |
False |
True |
True |
bakta, Grep1, staramr_search, bowtie2, upload1, jbrowse, tbl2gff3 |
Galaxy@AuBi, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
UseGalaxy.org (Main) |
0 |
|
4618 |
6245 |
9.116667 |
0 |
|
Genome Annotation |
Introduction to Genome Annotation |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/introduction/slides.html |
|
|
2019-05-13 |
2025-04-23 |
5 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280363 |
2.083333 |
0 |
|
Genome Annotation |
Genome Annotation |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/genome-annotation/tutorial.html |
|
|
2015-06-29 |
2025-06-10 |
19 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
35479 |
64380 |
2.066667 |
0 |
|
Genome Annotation |
Dataset construction for bacterial comparative genomics |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/bacterial-comparative-genomics-dataset-construction/tutorial.html |
Genomics, Microbiology |
Data handling, Sequence database search, Data retrieval |
2025-03-14 |
2026-04-13 |
2 |
True |
False |
False |
False |
Cut1, Remove beginning1, sort1, upload1, cat1, datasets_download_genome, bg_uniq |
UseGalaxy.fr |
UseGalaxy.cz |
0 |
|
138 |
156 |
12.650000 |
0 |
|
Genome Annotation |
Bacterial pangenomics |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/bacterial-pangenomics/tutorial.html |
Genomics, Microbiology |
Essential dynamics, Sequence assembly, Genome annotation, Rarefaction |
2025-03-14 |
2025-03-14 |
1 |
True |
False |
False |
False |
ppanggolin_all, upload1, ppanggolin_msa |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
177 |
203 |
6.116667 |
0 |
|
Genome Annotation |
Creating an Official Gene Set |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/official-gene-set/tutorial.html |
|
|
2023-11-02 |
2024-02-29 |
2 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
60 |
66 |
14.500000 |
0 |
|
Genome Annotation |
Bacterial genome quality control |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/bacterial-genome-quality-control/tutorial.html |
Genomics, Microbiology |
Sequence composition calculation, Genome comparison, Sequence assembly validation, Statistical calculation, Validation, Sequencing quality control |
2025-03-14 |
2025-03-14 |
1 |
True |
False |
False |
False |
checkm2, upload1, drep_dereplicate |
UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.cz |
0 |
|
227 |
267 |
12.200000 |
0 |
|
Genome Annotation |
Comparative gene analysis in unannotated genomes |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/gene-centric/tutorial.html |
Genomics, Gene and protein families, Sequence analysis, Phylogeny, Comparative genomics |
Database search, Sequence alignment analysis, Multiple sequence alignment, Transcriptome assembly, De-novo assembly, Coding region prediction, Phylogenetic tree generation |
2022-09-08 |
2025-06-03 |
10 |
True |
False |
False |
True |
regexColumn1, gops_intersect_1, collapse_dataset, bg_diamond_makedb, rapidnj, Cut1, Add_a_column1, bg_diamond, join1, rbc_mafft, tp_split_on_column, cat1, Filter1, bg_diamond_view, tab2fasta, orfipy |
UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
2114 |
2891 |
9.950000 |
0 |
|
Genome Annotation |
Genome annotation with Funannotate |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/funannotate/tutorial.html |
Gene and protein families |
Genome visualisation, Formatting, Fold recognition, Information extraction, Sequence annotation, Sequence assembly validation, Protein feature detection, Homology-based gene prediction, Query and retrieval, Sequence motif recognition, Genome annotation, Sequence alignment |
2021-11-29 |
2025-06-10 |
26 |
True |
False |
True |
True |
picard_MergeSamFiles, eggnog_mapper, funannotate_annotate, funannotate_predict, aegean_parseval, interproscan, jbrowse, rna_star, funannotate_compare, busco |
UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz |
0 |
|
12238 |
17016 |
5.566667 |
0 |
|
Genome Annotation |
Genome annotation with Maker (short) |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/annotation-with-maker-short/tutorial.html |
|
Genome visualisation, Sequence annotation, Genome annotation, Sequence assembly validation |
2021-01-12 |
2024-02-29 |
3 |
True |
False |
False |
True |
maker, maker_map_ids, jbrowse, gffread, jcvi_gff_stats, busco, fasta-stats |
|
UseGalaxy.be |
0 |
|
4374 |
6069 |
9.283333 |
0 |
|
Genome Annotation |
Essential genes detection with Transposon insertion sequencing |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/tnseq/tutorial.html |
Genomics, Microbiology, Sequence analysis, Mobile genetic elements |
Transposon prediction, Primer removal, Sequence trimming, Read pre-processing |
2019-07-02 |
2024-03-18 |
12 |
True |
True |
False |
True |
transit_gumbel, cutadapt, deeptools_bam_coverage, bg_find_subsequences, __EXTRACT_DATASET__, Cut1, bowtie_wrapper, Add_a_column1, gff_to_prot, Filter1, tp_easyjoin_tool, tp_sort_header_tool |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.no |
UseGalaxy.cz, UseGalaxy.eu |
0 |
|
3952705 |
9295776 |
5.750000 |
0 |
|
Genome Annotation |
Genome annotation with Maker |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/annotation-with-maker/tutorial.html |
|
Ab-initio gene prediction, Operation, Genome visualisation, Sequence annotation, Sequence assembly validation, Gene prediction, Homology-based gene prediction, Genome annotation |
2018-09-24 |
2024-02-29 |
14 |
True |
False |
False |
True |
augustus_training, maker, maker_map_ids, snap_training, jbrowse, gffread, fasta-stats, busco, jcvi_gff_stats |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
14428 |
25180 |
4.400000 |
0 |
|
Genome Annotation |
Functional annotation of protein sequences |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/functional/tutorial.html |
Function analysis, Protein sites, features and motifs |
Sequence alignment analysis, Fold recognition, Information extraction, Protein feature detection, Homology-based gene prediction, Query and retrieval, Sequence motif recognition, Genome annotation |
2022-07-20 |
2025-06-03 |
12 |
True |
False |
False |
True |
bg_diamond, ncbi_blastp_wrapper, interproscan, eggnog_mapper |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
5193 |
6797 |
6.216667 |
0 |
|
Genome Annotation |
Refining Genome Annotations with Apollo (eukaryotes) |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/apollo-euk/tutorial.html |
Genomics |
Genome visualisation |
2022-08-22 |
2025-06-03 |
16 |
True |
False |
False |
False |
create_or_update, jbrowse, iframe |
UseGalaxy.no |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
0 |
|
1756 |
2553 |
9.800000 |
0 |
|
Genome Annotation |
Long non-coding RNAs (lncRNAs) annotation with FEELnc |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/lncrna/tutorial.html |
|
RNA-Seq analysis, Annotation, Sequence annotation, Transcriptome assembly, Classification |
2022-09-23 |
2024-09-18 |
11 |
True |
False |
True |
True |
tp_cat, Extract_features1, feelnc, gffread, stringtie |
|
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
2288 |
3023 |
10.033333 |
0 |
|
Genome Annotation |
CRISPR screen analysis |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/crispr-screen/tutorial.html |
|
Sequence composition calculation, Primer removal, Sequence trimming, Read pre-processing, Sequencing quality control, Genetic variation analysis, Statistical calculation, Validation |
2021-10-15 |
2024-08-08 |
12 |
True |
True |
True |
True |
multiqc, cutadapt, mageck_test, volcanoplot, fastqc, tp_awk_tool, mageck_count, mageck_mle |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3553941 |
7918605 |
4.716667 |
0 |
|
Variant Analysis |
Microbial Variant Calling |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/microbial-variants/tutorial.html |
Genomics, Sequence assembly, DNA polymorphism, Microbiology, Sequence analysis, Genetic variation |
Genome visualisation, Variant calling, Phylogenetic tree visualisation, Phylogenetic tree generation |
2018-02-26 |
2026-01-23 |
25 |
True |
False |
False |
True |
snippy, jbrowse |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
16445 |
25863 |
5.016667 |
0 |
|
Visualisation |
Genomic Data Visualisation with JBrowse |
https://training.galaxyproject.org//topics/visualisation/tutorials/jbrowse/tutorial.html |
|
Genome visualisation |
2020-01-10 |
2026-04-29 |
17 |
True |
True |
False |
False |
jbrowse |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
Galaxy@Pasteur, GalaxyTrakr, MISSISSIPPI, UseGalaxy.cz |
0 |
|
3949433 |
9287531 |
10.383333 |
0 |
|
Visualisation |
Genomic Data Visualisation with JBrowse2 |
https://training.galaxyproject.org//topics/visualisation/tutorials/jbrowse2/tutorial.html |
|
Genome visualisation, Structure visualisation, Pathway visualisation |
2026-04-29 |
2026-04-29 |
1 |
True |
False |
False |
False |
jbrowse2 |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@Pasteur, UseGalaxy.org.au |
0 |
|
270 |
277 |
3.766667 |
0 |
|
Imaging |
Nucleoli segmentation and feature extraction using CellProfiler |
https://training.galaxyproject.org//topics/imaging/tutorials/tutorial-CP/tutorial.html |
|
Parsing, Image analysis, Quantification |
2020-07-01 |
2025-11-26 |
12 |
True |
True |
False |
True |
cp_measure_image_area_occupied, cp_convert_objects_to_image, idr_download_by_ids, cp_gray_to_color, cp_image_math, cp_measure_object_intensity, cp_measure_texture, cp_enhance_or_suppress_features, cp_display_data_on_image, cp_relate_objects, cp_save_images, cp_measure_image_quality, cp_measure_object_size_shape, cp_measure_image_intensity, cp_cellprofiler, cp_common, cp_export_to_spreadsheet, cp_measure_granularity, cp_identify_primary_objects, cp_mask_image |
UseGalaxy.be, UseGalaxy.eu |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
3948011 |
9286212 |
5.550000 |
0 |
|
Imaging |
Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy |
https://training.galaxyproject.org//topics/imaging/tutorials/omero-suite/tutorial.html |
|
Image analysis |
2024-12-04 |
2026-04-28 |
9 |
True |
False |
False |
True |
param_value_from_file, split_file_to_collection, omero_import, omero_get_value, omero_roi_import, omero_filter, Convert characters1, omero_metadata_import, tp_replace_in_line, omero_get_id |
UseGalaxy.eu |
UseGalaxy.org (Main) |
0 |
|
361 |
477 |
8.133333 |
0 |
|
Imaging |
Quantitative Analysis of Histological Staining Using Color Deconvolution |
https://training.galaxyproject.org//topics/imaging/tutorials/stain-quantification-color-deconvolution/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2026-06-15 |
2026-06-21 |
2 |
True |
False |
False |
True |
tp_cat, ip_split_image, cat1, ip_threshold, collection_element_identifiers, ip_histogram_equalization, Grep1, __EXTRACT_DATASET__, Show tail1, Add_a_column1, ip_imageinfo, Cut1, Paste1, tp_sed_tool, Show beginning1, collapse_dataset, imagej2_analyze_particles_binary, ip_2d_feature_extraction, ip_color_deconvolution, tp_text_file_with_recurring_lines |
|
|
0 |
|
57 |
73 |
20.116667 |
0 |
|
Imaging |
Voronoi segmentation |
https://training.galaxyproject.org//topics/imaging/tutorials/voronoi-segmentation/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2025-05-13 |
2026-02-20 |
8 |
True |
False |
False |
True |
ip_imageinfo, colorize_labels, ip_convertimage, image_math, ip_overlay_images, unzip, ip_2d_feature_extraction, ip_binary_to_labelimage, repeat_channels, ip_filter_standard, voronoi_tessellation, ip_count_objects, ip_threshold |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org (Main) |
0 |
|
535 |
722 |
6.800000 |
0 |
|
Imaging |
Segmentation of Anatomical Structures in Medical 3-D Images |
https://training.galaxyproject.org//topics/imaging/tutorials/dicom-anatomical-3d/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2026-02-26 |
2026-02-26 |
1 |
True |
False |
False |
True |
query_tabular, Convert characters1, ip_scale_image, compose_text_param, ip_threshold, param_value_from_file, ip_2d_filter_segmentation_by_features, Add_a_column1, tp_sort_header_tool, ridge_filter_skimage, add_line_to_file, ip_binary_to_labelimage, highdicom_dicom2tiff, libcarna_render, tp_replace_in_line, clip_image, unzip, ip_2d_feature_extraction, ip_concat_channels, tp_text_file_with_recurring_lines |
UseGalaxy.eu |
UseGalaxy.org (Main) |
0 |
|
144 |
163 |
9.250000 |
0 |
|
Imaging |
Analyse HeLa fluorescence siRNA screen |
https://training.galaxyproject.org//topics/imaging/tutorials/hela-screen-analysis/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2019-08-13 |
2026-01-18 |
16 |
True |
False |
False |
True |
ip_2d_filter_segmentation_by_features, collapse_dataset, unzip, ip_2d_feature_extraction, ip_binary_to_labelimage, ip_filter_standard, ip_threshold |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
885 |
1137 |
14.383333 |
0 |
|
Imaging |
Content Tracking and Verification in Galaxy Workflows with ISCC-SUM |
https://training.galaxyproject.org//topics/imaging/tutorials/iscc-suite/tutorial.html |
|
Image analysis |
2026-02-14 |
2026-02-16 |
2 |
True |
False |
False |
True |
param_value_from_file, iscc_sum_similarity, iscc_sum, __EXTRACT_DATASET__, ip_split_image, iscc_sum_verify, ip_threshold |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
56 |
56 |
27.550000 |
0 |
|
Imaging |
End-to-End Tissue Microarray Image Analysis with Galaxy-ME |
https://training.galaxyproject.org//topics/imaging/tutorials/multiplex-tissue-imaging-TMA/tutorial.html |
|
|
2023-02-14 |
2025-11-26 |
9 |
True |
False |
False |
True |
vitessce_spatial, scanpy_compute_graph, ip_convertimage, basic_illumination, quantification, gate_finder, scimap_mcmicro_to_anndata, mesmer, palom, unet_coreograph, scimap_phenotyping, squidpy_spatial, celesta, ashlar, rename_tiff_channels |
|
|
0 |
|
1725 |
2291 |
4.750000 |
0 |
|
Imaging |
Object tracking using CellProfiler |
https://training.galaxyproject.org//topics/imaging/tutorials/object-tracking-using-cell-profiler/tutorial.html |
|
Parsing, Image analysis, Quantification |
2021-03-17 |
2026-06-23 |
12 |
True |
False |
False |
True |
cp_measure_object_intensity, cp_export_to_spreadsheet, cp_save_images, cp_measure_object_size_shape, cp_track_objects, cp_identify_primary_objects, unzip, cp_overlay_outlines, cp_tile, cp_cellprofiler, cp_color_to_gray, cp_common |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
2342 |
2888 |
4.483333 |
0 |
|
Imaging |
Where to start with bioimage analysis in Galaxy |
https://training.galaxyproject.org//topics/imaging/tutorials/where-to-start-bioimaging-galaxy/tutorial.html |
|
Parsing, Image analysis, Image annotation, Quantification, Data handling, Visualisation, Formatting |
2026-02-17 |
2026-02-19 |
4 |
True |
False |
False |
False |
bioimage_inference, idr_download_by_ids, ip_split_image, cellpose, interactive_tool_cellprofiler, ip_overlay_images, ip_threshold, interactive_tool_ilastik, cellposesam, ip_histogram_equalization, bf2raw, cp_overlay_outlines, ip_imageinfo, ip_convertimage, libcarna_render, interactive_tool_cellpose, interactive_tool_qupath, ip_color_deconvolution, ip_filter_standard |
|
|
0 |
|
255 |
310 |
6.066667 |
0 |
|
Imaging |
Introduction to Image Analysis using Galaxy |
https://training.galaxyproject.org//topics/imaging/tutorials/imaging-introduction/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2019-08-13 |
2026-01-18 |
18 |
True |
False |
False |
True |
ip_imageinfo, ip_overlay_images, ip_histogram_equalization, unzip, ip_binary_to_labelimage, ip_filter_standard, ip_count_objects, ip_threshold |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.org (Main) |
0 |
|
2978 |
4096 |
8.916667 |
0 |
|
Imaging |
Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines |
https://training.galaxyproject.org//topics/imaging/tutorials/2D-spot-detection/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2025-03-20 |
2025-11-26 |
5 |
True |
False |
False |
True |
ip_histogram_equalization, idr_download_by_ids, unzip, __EXTRACT_DATASET__, ip_binary_to_labelimage, ip_spot_detection_2d, ip_points_to_label, ip_overlay_images |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.org (Main) |
0 |
|
308 |
365 |
6.466667 |
0 |
|
Imaging |
Using BioImage.IO models for image analysis in Galaxy |
https://training.galaxyproject.org//topics/imaging/tutorials/process-image-bioimageio/tutorial.html |
|
Image analysis |
2025-04-09 |
2026-06-23 |
10 |
True |
False |
False |
True |
image_math, bioimage_inference, __EXTRACT_DATASET__, ip_split_image, ip_binary_to_labelimage, ip_overlay_images, ip_threshold |
UseGalaxy.be, UseGalaxy.eu |
|
0 |
|
302 |
350 |
7.333333 |
0 |
|
Imaging |
Execute a BiaPy workflow in Galaxy |
https://training.galaxyproject.org//topics/imaging/tutorials/biapy/tutorial.html |
|
Image analysis |
2026-02-11 |
2026-02-17 |
2 |
True |
False |
False |
True |
ip_convertimage, biapy, __EXTRACT_DATASET__, ip_binary_to_labelimage, libcarna_render, ip_overlay_images |
UseGalaxy.eu |
|
0 |
|
65 |
74 |
19.066667 |
0 |
|
Imaging |
Parameter tuning and optimization - Evaluating nuclei segmentation with Galaxy |
https://training.galaxyproject.org//topics/imaging/tutorials/parameter-tuning/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2025-04-28 |
2026-01-21 |
4 |
True |
False |
False |
True |
param_value_from_file, collapse_dataset, ip_histogram_equalization, ip_segmetrics, ip_filter_standard, tp_split_on_column, ip_threshold |
UseGalaxy.be |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
0 |
|
173 |
188 |
11.400000 |
0 |
|
Imaging |
Quantification of electrophoresis gel bands using QuPath and Galaxy imaging tools |
https://training.galaxyproject.org//topics/imaging/tutorials/electrophoresis-gel-bands-image-analysis/tutorial.html |
|
Image analysis, Image annotation, Data handling, Visualisation |
2025-08-11 |
2026-06-01 |
4 |
True |
False |
False |
True |
ip_imageinfo, graphicsmagick_image_convert, __EXTRACT_DATASET__, ip_split_image, ip_2d_feature_extraction, ip_points_to_label, interactive_tool_qupath |
UseGalaxy.eu |
|
0 |
|
550 |
637 |
3.950000 |
0 |
|
Imaging |
Training Custom YOLO Models for Segmentation of Bioimages |
https://training.galaxyproject.org//topics/imaging/tutorials/yolo-segmentation-training/tutorial.html |
|
Image analysis, Image annotation, Visualisation, Data handling |
2025-07-25 |
2025-11-26 |
7 |
True |
False |
False |
True |
yolo_training, graphicsmagick_image_convert, interactive_tool_anylabeling, json2yolosegment, ip_histogram_equalization, unzip |
UseGalaxy.eu |
|
0 |
|
479 |
552 |
2.916667 |
0 |
|
Imaging |
Tracking of mitochondria and capturing mitoflashes |
https://training.galaxyproject.org//topics/imaging/tutorials/detection-of-mitoflashes/tutorial.html |
|
Image analysis |
2024-11-20 |
2025-11-26 |
5 |
True |
False |
False |
True |
ip_points_association_nn, ip_curve_fitting, ip_spot_detection_2d |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
286 |
323 |
7.600000 |
0 |
|
Introduction to Galaxy Analyses |
From peaks to genes |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-peaks2genes/tutorial.html |
|
|
2016-03-29 |
2026-03-30 |
69 |
True |
False |
True |
True |
gops_intersect_1, tp_replace_in_column, Cut1, CONVERTER_interval_to_bed_0, Add_a_column1, tp_tail_tool, upload1, Grouping1, get_flanks1, tp_sort_header_tool |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.no |
0 |
|
21437 |
35064 |
10.550000 |
0 |
|
Introduction to Galaxy Analyses |
Introduction to Genomics and Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-strands/tutorial.html |
|
|
2017-10-18 |
2026-05-17 |
43 |
True |
False |
True |
True |
tp_cat, gops_intersect_1, gene2exon1, cat1, Filter1, tp_sort_header_tool |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
MISSISSIPPI, UseGalaxy.no |
0 |
|
21319 |
33261 |
9.633333 |
0 |
|
Introduction to Galaxy Analyses |
NGS data logistics |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-ngs-data-managment/tutorial.html |
|
Formatting, Generation, Genome indexing, Sequence contamination filtering, Sequencing quality control, SNP detection, Read mapping, Data handling, Validation, Sequence alignment |
2017-02-22 |
2026-01-06 |
40 |
True |
False |
True |
True |
snpSift_extractFields, bwa_mem, multiqc, fasterq_dump, collapse_dataset, samtools_stats, samtools_view, snpEff_build_gb, bwa, bwa_mem2, lofreq_call, snpeff_sars_cov_2, fastp, lofreq_indelqual, lofreq_viterbi, picard_MarkDuplicates, snpEff, Filter1 |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz |
0 |
|
21723 |
36509 |
9.433333 |
0 |
|
Introduction to Galaxy Analyses |
Data Manipulation Olympics |
https://training.galaxyproject.org//topics/introduction/tutorials/data-manipulation-olympics/tutorial.html |
|
|
2022-07-20 |
2026-04-13 |
16 |
True |
False |
False |
True |
tp_cat, Remove beginning1, {{version_cut_advanced}}, cat1, {{version_replace_text_line}}, tabular_to_csv, {{version_count}}, {{version_filter}}, Count1, Add_a_column1, {{version_remove_beginning}}, {{version_join}}, {{version_replace_text_column}}, Grouping1, {{version_cut_columns}}, tp_sort_header_tool, {{version_select_first}}, {{version_split}}, tp_sorted_uniq, wc_gnu, Cut1, {{version_cat}}, {{version_compute}}, {{version_unique}}, datamash_ops, {{version_paste}}, Show beginning1, {{version_remove_columns_by_header}}, regexColumn1, {{version_datamash}}, join1, tp_split_on_column, upload1, {{version_wc}}, Filter1, {{version_sort}} |
|
|
0 |
|
6975 |
10006 |
11.333333 |
0 |
|
Introduction to Galaxy Analyses |
How to reproduce published Galaxy analyses |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-reproduce/tutorial.html |
|
Visualisation |
2021-08-25 |
2024-10-15 |
12 |
True |
False |
False |
True |
ggplot2_point, tp_sorted_uniq, Cut1, Remove beginning1, upload1, datamash_ops, Grouping1, csv_to_tabular |
Galaxy@AuBi, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
MISSISSIPPI, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
2430 |
3209 |
16.583333 |
0 |
|
Introduction to Galaxy Analyses |
Introduction to Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/introduction/slides.html |
|
|
2016-09-30 |
2025-09-23 |
6 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280363 |
2.083333 |
0 |
|
Introduction to Galaxy Analyses |
Options for using Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/options-for-using-galaxy/slides.html |
|
|
2017-05-24 |
2022-09-23 |
14 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280363 |
2.083333 |
0 |
|
Introduction to Galaxy Analyses |
Introduction to the Dataverse Integration in Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-dataverse/tutorial.html |
|
|
2026-06-25 |
2026-06-25 |
1 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
18 |
19 |
15.200000 |
0 |
|
Introduction to Galaxy Analyses |
Upload data to Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/dummy/tutorial.html |
|
|
2022-09-23 |
2023-11-09 |
5 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
561 |
637 |
9.983333 |
0 |
|
Introduction to Galaxy Analyses |
Best Practices for Citing Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-cite/tutorial.html |
|
|
2025-11-06 |
2026-07-08 |
3 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
342 |
371 |
6.650000 |
0 |
|
Introduction to Galaxy Analyses |
IGV Introduction |
https://training.galaxyproject.org//topics/introduction/tutorials/igv-introduction/tutorial.html |
|
|
2016-03-30 |
2023-02-17 |
11 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
8680 |
12072 |
5.350000 |
0 |
|
Introduction to Galaxy Analyses |
A short introduction to Galaxy |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-short/tutorial.html |
|
Statistical calculation, Sequence composition calculation, Sequencing quality control |
2018-08-27 |
2026-01-23 |
44 |
True |
True |
True |
True |
fastqc, cshl_fastq_quality_filter |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@Pasteur, GalaxyTrakr, MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
4005583 |
9375872 |
12.183333 |
0 |
|
Introduction to Galaxy Analyses |
Galaxy Basics for genomics |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-101/tutorial.html |
|
Mapping |
2016-12-19 |
2025-04-22 |
68 |
True |
False |
True |
True |
bedtools_intersectbed, comp1, upload1, datamash_ops, tp_head_tool, tp_sort_header_tool |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.be, UseGalaxy.no |
0 |
|
55701 |
88540 |
8.533333 |
0 |
|
Introduction to Galaxy Analyses |
Galaxy Basics for everyone |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-101-everyone/tutorial.html |
|
Visualisation |
2019-11-14 |
2025-11-06 |
35 |
True |
False |
True |
True |
ggplot2_point, tp_sorted_uniq, Cut1, Remove beginning1, upload1, datamash_ops, Grouping1, csv_to_tabular |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
Galaxy@AuBi, MISSISSIPPI, UseGalaxy.cz |
0 |
|
27969 |
43712 |
10.033333 |
0 |
|
Introduction to Galaxy Analyses |
Introduction to Galaxy as an RDM platform |
https://training.galaxyproject.org//topics/introduction/tutorials/galaxy-intro-rdm/tutorial.html |
|
Visualisation |
2026-03-19 |
2026-03-20 |
2 |
True |
False |
False |
True |
ggplot2_histogram, imagemagick_image_montage, unzip, Add_a_column1, Summary_Statistics1, column_remove_by_header, export_remote |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
322 |
405 |
12.066667 |
0 |
|
Introduction to Galaxy Analyses |
Very Short Introductions: QC |
https://training.galaxyproject.org//topics/introduction/tutorials/vsi_qc/tutorial.html |
|
Validation, Sequencing quality control, Sequence contamination filtering |
2024-03-26 |
2024-06-25 |
4 |
True |
False |
False |
False |
fastp, multiqc |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
GalaxyTrakr, MISSISSIPPI, UseGalaxy.no |
0 |
|
433 |
504 |
6.100000 |
0 |
|
Materials Science |
Finding the muon stopping site with pymuon-suite in Galaxy |
https://training.galaxyproject.org//topics/materials-science/tutorials/muon-stopping-sites-muairss-uep/tutorial.html |
|
|
2024-01-22 |
2024-06-14 |
2 |
True |
False |
True |
True |
pm_uep_opt, pm_muairss_read |
UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.be |
0 |
|
401 |
494 |
6.316667 |
0 |
|
Metabolomics |
Mass spectrometry: LC-MS analysis |
https://training.galaxyproject.org//topics/metabolomics/tutorials/lcms/tutorial.html |
|
Mass spectrum visualisation, Data filtering, Chromatogram visualisation, Chromatographic alignment, Peak detection, Validation, Label-free quantification |
2019-07-02 |
2025-09-21 |
13 |
True |
False |
False |
True |
abims_CAMERA_annotateDiffreport, quality_metrics, xcms_export_samplemetadata, abims_xcms_group, xcms_plot_chromatogram, abims_xcms_xcmsSet, abims_xcms_fillPeaks, abims_xcms_retcor, Batch_correction, Univariate, wsdl_hmdb, xcms_merge, msnbase_readmsdata, generic_filter |
|
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no |
0 |
|
14046 |
22570 |
3.633333 |
0 |
|
Metabolomics |
Mass spectrometry imaging: Examining the spatial distribution of analytes |
https://training.galaxyproject.org//topics/metabolomics/tutorials/msi-analyte-distribution/tutorial.html |
|
|
2019-02-21 |
2024-10-15 |
18 |
True |
False |
False |
True |
cardinal_mz_images, cardinal_spectra_plots, cardinal_data_exporter, cardinal_filtering, cardinal_quality_report, Filter1 |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3408 |
4746 |
9.050000 |
0 |
|
Metabolomics |
Molecular formula assignment and mass recalibration with MFAssignR package |
https://training.galaxyproject.org//topics/metabolomics/tutorials/mfassignr/tutorial.html |
|
Mass spectra calibration, Annotation, Deisotoping, Visualisation |
2025-05-19 |
2025-05-19 |
1 |
True |
False |
False |
True |
mfassignr_isofiltr, mfassignr_findRecalSeries, mfassignr_recal, mfassignr_mfassign, mfassignr_histnoise, mfassignr_kmdnoise, mfassignr_mfassignCHO, mfassignr_snplot, mfassignr_recallist |
|
|
0 |
|
326 |
382 |
5.100000 |
0 |
|
Metabolomics |
Mass spectrometry: GC-MS data processing (with XCMS, RAMClustR, RIAssigner, and matchms) |
https://training.galaxyproject.org//topics/metabolomics/tutorials/gc_ms_with_xcms/tutorial.html |
|
Mass spectrum visualisation, Correlation, Clustering, Standardisation and normalisation, Chromatogram visualisation, Chromatographic alignment, Imputation, Format validation, Formatting, Validation, Data filtering, Filtering, Label-free quantification, Peak detection, Spectral library search |
2023-05-08 |
2023-11-09 |
5 |
True |
False |
False |
True |
abims_xcms_group, abims_xcms_xcmsSet, abims_xcms_fillPeaks, ramclustr, abims_xcms_retcor, msconvert, riassigner, matchms_similarity, matchms_filtering, ramclustr_define_experiment, waveica, xcms_merge, msnbase_readmsdata, matchms_formatter |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
3284 |
4153 |
3.950000 |
0 |
|
Metabolomics |
Predicting EI+ mass spectra with QCxMS |
https://training.galaxyproject.org//topics/metabolomics/tutorials/qcxms-predictions/tutorial.html |
|
|
2024-10-01 |
2024-10-01 |
1 |
True |
True |
False |
True |
param_value_from_file, split_file_to_collection, tp_cat, tp_cut_tool, xtb_molecular_optimization, qcxms_getres, qcxms_neutral_run, ctb_im_conformers, __FILTER_FAILED_DATASETS__, qcxms_production_run, openbabel_compound_convert |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be |
0 |
|
1823424 |
3391807 |
5.750000 |
0 |
|
Metabolomics |
Mass spectrometry imaging: Finding differential analytes |
https://training.galaxyproject.org//topics/metabolomics/tutorials/msi-finding-nglycans/tutorial.html |
|
|
2019-04-13 |
2023-11-09 |
9 |
True |
False |
False |
True |
cardinal_combine, cardinal_classification, cardinal_mz_images, join_files_on_column_fuzzy, Grep1, maldi_quant_preprocessing, maldi_quant_peak_detection, Summary_Statistics1, cardinal_preprocessing, cardinal_quality_report, Filter1, cardinal_segmentations |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
2234 |
3121 |
8.766667 |
0 |
|
Metabolomics |
Introduction to Metabolomics |
https://training.galaxyproject.org//topics/metabolomics/tutorials/introduction/slides.html |
|
|
2018-11-20 |
2023-01-12 |
1 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280366 |
2.083333 |
0 |
|
Metabolomics |
Mass spectrometry: LC-MS preprocessing with XCMS |
https://training.galaxyproject.org//topics/metabolomics/tutorials/lcms-preprocessing/tutorial.html |
|
Mass spectrum visualisation, Data filtering, Chromatogram visualisation, Chromatographic alignment, Peak detection, Validation, Label-free quantification |
2020-02-04 |
2024-10-15 |
14 |
True |
True |
False |
False |
abims_CAMERA_annotateDiffreport, xcms_export_samplemetadata, abims_xcms_group, xcms_plot_chromatogram, abims_xcms_xcmsSet, abims_xcms_fillPeaks, abims_xcms_retcor, abims_xcms_summary, intens_check, idchoice, xcms_merge, msnbase_readmsdata |
UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
3950719 |
9290832 |
7.116667 |
0 |
|
Metabolomics |
Mass spectrometry: GC-MS analysis with the metaMS package |
https://training.galaxyproject.org//topics/metabolomics/tutorials/gcms/tutorial.html |
|
Mass spectrum visualisation, Data filtering, Chromatogram visualisation, Chromatographic alignment, Peak detection, Validation, Label-free quantification |
2021-09-22 |
2025-10-01 |
8 |
True |
False |
False |
False |
abims_xcms_group, xcms_export_samplemetadata, xcms_plot_chromatogram, abims_xcms_xcmsSet, abims_xcms_fillPeaks, metams_runGC, xcms_merge, msnbase_readmsdata |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
1957 |
2930 |
3.783333 |
0 |
|
Metabolomics |
Mass spectrometry: LC-MS data processing |
https://training.galaxyproject.org//topics/metabolomics/tutorials/lcms-dataprocessing/tutorial.html |
|
|
2021-12-14 |
2024-10-15 |
8 |
True |
False |
False |
False |
quality_metrics, Multivariate, Batch_correction, intens_check, normalization, generic_filter |
UseGalaxy.fr |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
3424 |
4546 |
6.050000 |
0 |
|
Microbiome |
Introduction to Microbiome Analysis |
https://training.galaxyproject.org//topics/microbiome/tutorials/introduction/slides.html |
|
|
2017-06-22 |
2024-08-08 |
5 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280366 |
2.083333 |
0 |
|
Microbiome |
Analyses of metagenomics data - The global picture |
https://training.galaxyproject.org//topics/microbiome/tutorials/general-tutorial/tutorial.html |
Metagenomics, Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
Sequence clustering, DNA barcoding, Sequence read processing, Sequencing quality control, Taxonomic classification, Phylogenetic analysis, Visualisation |
2017-06-22 |
2024-08-09 |
4 |
True |
False |
False |
True |
mothur_make_group, humann2, mothur_classify_otu, mothur_summary_seqs, taxonomy_krona_chart, humann2_renorm_table, mothur_count_seqs, mothur_align_seqs, krona-text, mothur_classify_seqs, mothur_merge_files, mothur_screen_seqs, mothur_unique_seqs, metaphlan2, mothur_make_biom, humann2_regroup_table, mothur_filter_seqs, mothur_pre_cluster, metaphlan2krona, mothur_make_shared, mothur_cluster_split |
|
UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.no |
0 |
|
11570 |
15527 |
5.733333 |
0 |
|
Microbiome |
Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition |
https://training.galaxyproject.org//topics/microbiome/tutorials/pathogen-detection-from-nanopore-foodborne-data/tutorial.html |
Metagenomics, Public health and epidemiology, Taxonomy, Sequence assembly, Pathology, Sequence analysis |
Sequence alignment analysis, De-novo assembly, Sequence assembly visualisation, Box-Whisker plot plotting, Variant calling, Sequencing quality control, Mapping, Genome assembly, Base-calling, Multiple sequence alignment, Phylogenetic tree reconstruction, Phylogenetic tree analysis, Sequence contamination filtering, Validation, Cross-assembly, Sequence composition calculation, Scatter plot plotting, Sequence assembly, Pairwise sequence alignment, Antimicrobial resistance prediction, Aggregation, Multilocus sequence typing, Taxonomic classification, Statistical calculation, Data handling, Visualisation, Mapping assembly, Phylogenetic tree generation |
2023-01-26 |
2025-11-18 |
12 |
True |
False |
True |
True |
snpSift_extractFields, nanoplot, collection_column_join, table_compute, abricate, bcftools_norm, bedtools_getfastabed, Remove beginning1, mlst, __FILTER_FAILED_DATASETS__, flye, porechop, compose_text_param, medaka_consensus_pipeline, __BUILD_LIST__, taxonomy_krona_chart, param_value_from_file, collection_element_identifiers, newick_display, Grep1, samtools_coverage, Count1, Add_a_column1, fastp, clair3, Grouping1, __FILTER_EMPTY_DATASETS__, krakentools_extract_kraken_reads, fasta_merge_files_and_filter_unique_sequences, split_file_to_collection, samtools_depth, tp_cut_tool, regex1, bamtools_split_mapped, krakentools_kreport2krona, barchart_gnuplot, bcftools_consensus, tp_sorted_uniq, kraken2, Cut1, Paste1, add_line_to_file, clustalw, fasta2tab, samtools_fastx, ggplot2_heatmap, tp_head_tool, snpSift_filter, CONVERTER_gz_to_uncompressed, tp_find_and_replace, regexColumn1, fasttree, multiqc, collapse_dataset, tp_multijoin_tool, tp_replace_in_column, fastqc, tp_split_on_column, bandage_image, tab2fasta, minimap2 |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz |
0 |
|
5947 |
8596 |
8.616667 |
0 |
|
Microbiome |
Taxonomic Profiling and Visualization of Metagenomic Data |
https://training.galaxyproject.org//topics/microbiome/tutorials/taxonomic-profiling/tutorial.html |
Metagenomics, Microbial ecology, Taxonomy, Sequence analysis |
Aggregation, Taxonomic classification, Statistical calculation, Visualisation, Genome annotation |
2023-05-03 |
2026-05-11 |
8 |
True |
False |
True |
True |
__UNZIP_COLLECTION__, kraken_biom, interactive_tool_phinch, krakentools_kreport2krona, kraken2, est_abundance, interactive_tool_pavian, metaphlan, taxonomy_krona_chart |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
15417 |
20467 |
5.633333 |
0 |
|
Microbiome |
MGnify v5.0 Amplicon Pipeline |
https://training.galaxyproject.org//topics/microbiome/tutorials/mgnify-amplicon/tutorial.html |
Metagenomics, Taxonomy, Sequence analysis |
Nucleic acid design, Sequencing quality control, Mapping, Analysis, Sequence feature detection, k-mer counting, Nucleic acid feature detection, Validation, Formatting, Sequence contamination filtering, Sequence composition calculation, DNA barcoding, Alignment, Sequence trimming, Read pre-processing, Statistical calculation, Comparison, Visualisation |
2025-07-30 |
2025-11-18 |
3 |
True |
False |
False |
True |
query_tabular, collection_column_join, bedtools_getfastabed, trimmomatic, gops_concat_1, __MERGE_COLLECTION__, __FILTER_FROM_FILE__, taxonomy_krona_chart, param_value_from_file, filter_tabular, collection_element_identifiers, ampvis2_load, Add_a_column1, fastp, Grouping1, __FILTER_EMPTY_DATASETS__, ampvis2_heatmap, mapseq, cmsearch_deoverlap, bedtools_maskfastabed, biom_convert, wc_gnu, fastq_filter, infernal_cmsearch, prinseq, fastq_to_fasta_python, CONVERTER_gz_to_uncompressed, __UNZIP_COLLECTION__, tp_find_and_replace, lotus2, fastq_dl, multiqc, seqprep, collapse_dataset, CONVERTER_uncompressed_to_gz, cshl_fasta_formatter, tp_awk_tool, fastqc, mgnify_seqprep |
|
|
0 |
|
480 |
629 |
11.216667 |
0 |
|
Microbiome |
Metatranscriptomics analysis using microbiome RNA-seq data |
https://training.galaxyproject.org//topics/microbiome/tutorials/metatranscriptomics/tutorial.html |
Metatranscriptomics, Microbial ecology, Taxonomy, Function analysis, Sequence analysis |
Sequence alignment analysis, Primer removal, Phylogenetic tree editing, Sequencing quality control, Sequence comparison, Phylogenetic analysis, Validation, Sequence composition calculation, Phylogenetic inference, Sequence similarity search, Sequence trimming, Species frequency estimation, Read pre-processing, Conversion, Aggregation, Taxonomic classification, Statistical calculation, Visualisation, Phylogenetic tree visualisation |
2019-11-21 |
2025-06-16 |
6 |
True |
True |
True |
True |
cutadapt, graphlan_annotate, humann_renorm_table, humann, taxonomy_krona_chart, Grep1, bg_sortmerna, Grouping1, humann_unpack_pathways, tp_sort_header_tool, humann_regroup_table, humann_rename_table, Cut1, graphlan, humann_split_stratified_table, metaphlan, tp_find_and_replace, combine_metaphlan_humann, multiqc, export2graphlan, fastqc, fastq_paired_end_interlacer |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.eu |
0 |
|
3952047 |
9290850 |
6.900000 |
0 |
|
Microbiome |
Antibiotic resistance detection |
https://training.galaxyproject.org//topics/microbiome/tutorials/plasmid-metagenomics-nanopore/tutorial.html |
Metagenomic sequencing, Public health and epidemiology, Metagenomics, Microbiology, Infectious disease, Sequence analysis, Antimicrobial resistance |
Scatter plot plotting, De-novo assembly, Sequence assembly visualisation, Box-Whisker plot plotting, Pairwise sequence alignment, Antimicrobial resistance prediction, Genome assembly, Aggregation, Sequence analysis, Mapping assembly |
2019-06-25 |
2024-06-14 |
4 |
True |
False |
True |
True |
PlasFlow, nanoplot, miniasm, unicycler, staramr_search, racon, bandage_image, minimap2, gfa_to_fa |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
4368 |
5933 |
6.933333 |
0 |
|
Microbiome |
Clinical Metaproteomics 1: Database-Generation |
https://training.galaxyproject.org//topics/microbiome/tutorials/clinical-mp-1-database-generation/tutorial.html |
|
Expression analysis, Tag-based peptide identification, Protein identification, de Novo sequencing, Target-Decoy |
2026-07-12 |
2026-07-12 |
0 |
True |
False |
True |
True |
dbbuilder, uniprotxml_downloader, metanovo, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.org (Main) |
0 |
|
1 |
1 |
0.000000 |
0 |
|
Microbiome |
16S Microbial analysis with Nanopore data |
https://training.galaxyproject.org//topics/microbiome/tutorials/nanopore-16S-metagenomics/tutorial.html |
Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
Sequence composition calculation, Taxonomic classification, Sequence contamination filtering, Statistical calculation, Visualisation, Validation, Sequencing quality control |
2020-11-24 |
2024-07-31 |
5 |
True |
False |
False |
True |
multiqc, kraken2, Remove beginning1, fastp, datamash_reverse, fastqc, porechop, tp_replace_in_line, taxonomy_krona_chart |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
10441 |
14390 |
5.466667 |
0 |
|
Microbiome |
Calculating α and β diversity from microbiome taxonomic data |
https://training.galaxyproject.org//topics/microbiome/tutorials/diversity/tutorial.html |
|
Aggregation, Visualisation |
2024-08-01 |
2025-06-17 |
7 |
True |
False |
True |
True |
krakentools_beta_diversity, krakentools_alpha_diversity |
Galaxy@Pasteur, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr |
0 |
|
10242 |
12244 |
3.850000 |
0 |
|
Microbiome |
Clinical Metaproteomics 5: Data Interpretation |
https://training.galaxyproject.org//topics/microbiome/tutorials/clinical-mp-5-data-interpretation/tutorial.html |
|
Prediction and recognition, Visualisation |
2026-07-12 |
2026-07-12 |
0 |
True |
False |
True |
True |
Grep1, unipept, msstatstmt |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
0 |
0 |
0.000000 |
0 |
|
Microbiome |
Identification of the micro-organisms in a beer using Nanopore sequencing |
https://training.galaxyproject.org//topics/microbiome/tutorials/beer-data-analysis/tutorial.html |
Metagenomics, Microbial ecology, Taxonomy, Sequence analysis |
Sequence composition calculation, Aggregation, Taxonomic classification, Sequence contamination filtering, Statistical calculation, Visualisation, Sequencing quality control |
2022-09-29 |
2024-11-29 |
5 |
True |
False |
True |
True |
krakentools_kreport2krona, kraken2, fastp, fastqc, Filter1, porechop, taxonomy_krona_chart |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3535 |
5114 |
8.416667 |
0 |
|
Microbiome |
Identifying Mycorrhizal Fungi from ITS2 sequencing using LotuS2 |
https://training.galaxyproject.org//topics/microbiome/tutorials/lotus2-identifying-fungi/tutorial.html |
|
Sequence feature detection, DNA barcoding |
2024-09-30 |
2024-09-30 |
2 |
True |
False |
False |
True |
lotus2 |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
1055 |
1295 |
5.400000 |
0 |
|
Microbiome |
Clinical Metaproteomics 2: Discovery |
https://training.galaxyproject.org//topics/microbiome/tutorials/clinical-mp-2-discovery/tutorial.html |
|
Protein quantification, Filtering, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Visualisation, Formatting, Heat map generation |
2026-07-12 |
2026-07-12 |
0 |
True |
False |
True |
True |
filter_tabular, query_tabular, fasta_cli, tp_cat, Grep1, ident_params, msconvert, peptide_shaker, Cut1, Remove beginning1, dbbuilder, fasta2tab, search_gui, Filter1, Grouping1, maxquant, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.fr |
0 |
|
0 |
0 |
0.000000 |
0 |
|
Microbiome |
Metatranscriptomics analysis using microbiome RNA-seq data (short) |
https://training.galaxyproject.org//topics/microbiome/tutorials/metatranscriptomics-short/tutorial.html |
Metatranscriptomics, Microbial ecology, Taxonomy, Function analysis, Sequence analysis |
Sequence alignment analysis, Primer removal, Phylogenetic tree editing, Sequencing quality control, Sequence comparison, Phylogenetic analysis, Validation, Sequence composition calculation, Phylogenetic inference, Sequence similarity search, Sequence trimming, Species frequency estimation, Read pre-processing, Conversion, Taxonomic classification, Statistical calculation, Visualisation, Phylogenetic tree visualisation |
2020-02-13 |
2025-06-16 |
6 |
True |
False |
True |
True |
cutadapt, graphlan_annotate, humann_renorm_table, humann, taxonomy_krona_chart, Grep1, bg_sortmerna, humann_unpack_pathways, tp_sort_header_tool, combine_metaphlan2_humann2, humann_regroup_table, humann_rename_table, Cut1, graphlan, humann_split_stratified_table, metaphlan, tp_find_and_replace, multiqc, export2graphlan, fastqc, fastq_paired_end_interlacer |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.no |
0 |
|
1106 |
1400 |
9.966667 |
0 |
|
Microbiome |
Remove contamination and host reads |
https://training.galaxyproject.org//topics/microbiome/tutorials/host-removal/tutorial.html |
|
Sequencing quality control, Validation, Read mapping |
2025-12-18 |
2026-05-12 |
3 |
True |
False |
True |
True |
bowtie2, multiqc, __ZIP_COLLECTION__ |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
GalaxyTrakr, MISSISSIPPI, UseGalaxy.no |
0 |
|
500 |
607 |
10.050000 |
0 |
|
Microbiome |
Binning of metagenomic sequencing data |
https://training.galaxyproject.org//topics/microbiome/tutorials/metagenomics-binning/tutorial.html |
Metagenomics, Sequence assembly |
Sequence composition calculation, Sequence clustering, Sequence assembly validation, Sequence assembly, Validation, Sequencing quality control, Statistical calculation, Genome comparison, Read binning, Genome annotation, Read mapping |
2023-12-05 |
2026-04-09 |
9 |
True |
False |
True |
True |
metabat2_jgi_summarize_bam_contig_depths, Fasta_to_Contig2Bin, concoct_cut_up_fasta, concoct_coverage_table, __BUILD_LIST__, metabat2, checkm_lineage_wf, das_tool, semibin, bowtie2, concoct, drep_dereplicate, binette, concoct_extract_fasta_bins, maxbin2, concoct_merge_cut_up_clustering, samtools_sort |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
GalaxyTrakr, UseGalaxy.org.au, UseGalaxy.org (Main) |
0 |
|
7560 |
9224 |
5.433333 |
0 |
|
Microbiome |
Assembly of metagenomic sequencing data |
https://training.galaxyproject.org//topics/microbiome/tutorials/metagenomics-assembly/tutorial.html |
Metagenomics, Sequence assembly |
Sequence alignment analysis, Local alignment, Primer removal, Sequence assembly visualisation, Variant calling, Sequencing quality control, Genome assembly, Formatting, Read mapping, Sequence contamination filtering, Sequence composition calculation, Sequence assembly validation, Sequence trimming, Sequence file editing, Read pre-processing, Statistical calculation, Data handling, Visualisation |
2022-12-05 |
2026-05-11 |
11 |
True |
False |
True |
True |
filter_tabular, bandage_info, tp_cat, cutadapt, coverm_contig, collection_column_join, megahit_contig2fastg, quast, bamtools, ngsutils_bam_filter, metaspades, seqtk_subseq, bowtie2, fastqc, random_lines1, bandage_image, megahit, bg_uniq |
|
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
0 |
|
5699 |
7837 |
10.416667 |
0 |
|
Microbiome |
Query an annotated mobile genetic element database to identify and annotate genetic elements (e.g. plasmids) in metagenomics data |
https://training.galaxyproject.org//topics/microbiome/tutorials/metaplasmidome_query/tutorial.html |
Genomics, Microbiology, Sequence analysis, Mobile genetic elements |
Visualisation, Pairwise sequence alignment |
2025-01-07 |
2026-04-13 |
2 |
True |
False |
False |
True |
ggplot2_histogram, Grouping1, histogram_rpy, MQoutputfilter, tp_replace_in_column, tp_sorted_uniq, Cut1, sort1, Add_a_column1, join1, tp_tail_tool, add_column_headers, count_gff_features, cat1, Filter1, CONVERTER_fasta_to_tabular, tab2fasta, minimap2 |
UseGalaxy.fr |
|
0 |
|
524 |
597 |
7.966667 |
0 |
|
Microbiome |
Clinical Metaproteomics 4: Quantitation |
https://training.galaxyproject.org//topics/microbiome/tutorials/clinical-mp-4-quantitation/tutorial.html |
|
Protein quantification, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Visualisation, Heat map generation |
2026-07-12 |
2026-07-12 |
0 |
True |
False |
True |
True |
Grouping1, Grep1, maxquant, Cut1 |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
0 |
0 |
0.000000 |
0 |
|
Microbiome |
Clinical Metaproteomics 3: Verification |
https://training.galaxyproject.org//topics/microbiome/tutorials/clinical-mp-3-verification/tutorial.html |
|
|
2026-07-12 |
2026-07-12 |
0 |
True |
False |
True |
True |
query_tabular, tp_cat, collapse_dataset, Cut1, Remove beginning1, dbbuilder, uniprotxml_downloader, pepquery2, Filter1, Grouping1, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.org (Main) |
0 |
|
0 |
0 |
0.000000 |
0 |
|
Microbiome |
Building an amplicon sequence variant (ASV) table from 16S data using DADA2 |
https://training.galaxyproject.org//topics/microbiome/tutorials/dada-16S/tutorial.html |
Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
Analysis, Deposition, DNA barcoding, Visualisation, Variant calling |
2024-06-05 |
2026-04-13 |
12 |
True |
False |
True |
True |
dada2_removeBimeraDenovo, dada2_mergePairs, dada2_learnErrors, dada2_filterAndTrim, interactive_tool_phyloseq, cat1, collection_element_identifiers, dada2_makeSequenceTable, Add_a_column1, Grouping1, dada2_plotQualityProfile, dada2_seqCounts, phyloseq_from_dada2, dada2_dada, tp_replace_in_line, tp_head_tool, __UNZIP_COLLECTION__, dada2_assignTaxonomyAddspecies, tp_replace_in_column, __SORTLIST__ |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
10016 |
14254 |
5.533333 |
0 |
|
Microbiome |
QIIME 2 Moving Pictures |
https://training.galaxyproject.org//topics/microbiome/tutorials/qiime2-moving-pictures/tutorial.html |
Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
|
2024-03-14 |
2026-02-18 |
2 |
external |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
821 |
1232 |
7.500000 |
0 |
|
Microbiome |
QIIME 2 Cancer Microbiome Intervention |
https://training.galaxyproject.org//topics/microbiome/tutorials/qiime2-cancer-microbiome-intervention/tutorial.html |
Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
|
2024-02-12 |
2024-03-14 |
3 |
external |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
549 |
893 |
10.066667 |
0 |
|
Microbiome |
Building and Annotating Metagenome-Assembled Genomes (MAGs) from Short Metagenomics Paired Reads |
https://training.galaxyproject.org//topics/microbiome/tutorials/mags-building/tutorial.html |
Metagenomics, Sequence assembly |
Sequence composition calculation, Sequence assembly validation, Genome annotation, Sequencing quality control, Genome comparison, Statistical calculation, Data handling, Validation |
2025-12-18 |
2026-05-18 |
6 |
True |
False |
True |
False |
kmetashot, bakta, multiqc, fasterq_dump, collapse_dataset, collection_column_join, tp_replace_in_column, __EXTRACT_DATASET__, Cut1, Remove beginning1, checkm_lineage_wf, join1, Summary_Statistics1, drep_dereplicate, cat1, Grouping1, tp_sort_header_tool |
UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
1357 |
1792 |
6.633333 |
0 |
|
Microbiome |
Indexing and profiling microbes with MetaSBT |
https://training.galaxyproject.org//topics/microbiome/tutorials/metasbt/tutorial.html |
Microbial ecology, Taxonomy |
|
2025-08-25 |
2025-08-25 |
7 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
144 |
155 |
18.916667 |
0 |
|
Microbiome |
16S Microbial Analysis with mothur (extended) |
https://training.galaxyproject.org//topics/microbiome/tutorials/mothur-miseq-sop/tutorial.html |
Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
Phylogenetic tree reconstruction, Sequence clustering, DNA barcoding, Phylogenetic tree analysis, Sequence read processing, Sequencing quality control, Taxonomic classification, Phylogenetic analysis, Visualisation, Phylogenetic tree generation |
2017-02-12 |
2025-12-18 |
5 |
True |
False |
False |
True |
mothur_cluster, mothur_classify_otu, mothur_seq_error, mothur_summary_seqs, mothur_count_groups, mothur_get_groups, taxonomy_krona_chart, mothur_remove_groups, mothur_tree_shared, mothur_taxonomy_to_krona, newick_display, mothur_count_seqs, mothur_align_seqs, mothur_remove_seqs, mothur_classify_seqs, XY_Plot_1, mothur_screen_seqs, mothur_dist_seqs, mothur_unique_seqs, mothur_heatmap_sim, mothur_remove_lineage, mothur_make_biom, mothur_filter_seqs, mothur_pre_cluster, mothur_make_contigs, mothur_make_shared, mothur_chimera_vsearch, mothur_cluster_split, mothur_dist_shared, mothur_venn, mothur_sub_sample, mothur_rarefaction_single, mothur_summary_single |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
14494 |
21325 |
5.016667 |
0 |
|
Microbiome |
16S Microbial Analysis with mothur (short) |
https://training.galaxyproject.org//topics/microbiome/tutorials/mothur-miseq-sop-short/tutorial.html |
Microbial ecology, Taxonomy, Sequence analysis, Metabarcoding |
Phylogenetic tree reconstruction, Sequence clustering, DNA barcoding, Phylogenetic tree analysis, Sequence read processing, Sequencing quality control, Taxonomic classification, Phylogenetic analysis, Visualisation, Phylogenetic tree generation |
2019-05-13 |
2025-12-18 |
6 |
True |
False |
True |
True |
mothur_cluster, mothur_classify_otu, mothur_summary_seqs, mothur_count_groups, mothur_remove_groups, mothur_tree_shared, newick_display, mothur_count_seqs, mothur_remove_seqs, mothur_classify_seqs, XY_Plot_1, mothur_screen_seqs, mothur_dist_seqs, mothur_unique_seqs, mothur_heatmap_sim, mothur_remove_lineage, mothur_filter_seqs, mothur_pre_cluster, mothur_make_shared, mothur_chimera_vsearch, mothur_cluster_split, collapse_dataset, mothur_dist_shared, mothur_venn, mothur_sub_sample, mothur_rarefaction_single, mothur_summary_single |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.fr |
0 |
|
6839 |
11507 |
7.783333 |
0 |
|
Variant Analysis |
Pox virus genome analysis from tiled-amplicon sequencing data |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/pox-tiled-amplicon/tutorial.html |
|
Sequence alignment analysis, Local alignment, Generation, Primer removal, Genome indexing, Global alignment, Sequencing quality control, Multiple sequence alignment, Sequence analysis, Sequence contamination filtering, Sequence alignment, Read mapping |
2023-05-15 |
2024-03-20 |
4 |
True |
False |
False |
True |
fatovcf, rbc_mafft, compose_text_param, param_value_from_file, Grep1, Add_a_column1, fastp, __APPLY_RULES__, fasta_compute_length, mimodd_info, Cut1, __ZIP_COLLECTION__, datamash_ops, samtools_merge, qualimap_bamqc, bwa_mem, EMBOSS: maskseq51, samtools_view, ivar_trim, upload1, ivar_consensus, fasta_regex_finder |
UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
1290 |
1507 |
7.816667 |
0 |
|
Variant Analysis |
M. tuberculosis Variant Analysis |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/tb-variant-analysis/tutorial.html |
Genomics, Microbiology, Sequence assembly, Genetic variation, Public health and epidemiology, Infectious disease |
Genome visualisation, Sequence alignment analysis, Local alignment, Sequence composition calculation, Phylogenetic tree visualisation, Global alignment, Validation, Variant calling, Sequencing quality control, Antimicrobial resistance prediction, Sequence analysis, Taxonomic classification, Statistical calculation, Sequence alignment, Sequence contamination filtering, Phylogenetic tree generation |
2020-07-25 |
2026-01-06 |
32 |
True |
False |
True |
True |
tb_profiler_profile, fastp, jvarkit_wgscoverageplotter, jbrowse, tbvcfreport, samtools_stats, EMBOSS: seqret84, bcftools_consensus, kraken2, tp_sed_tool, qualimap_bamqc, multiqc, tb_variant_filter, __FLATTEN__, EMBOSS:%20seqret84, tp_awk_tool, fastqc, mosdepth, upload1, snippy |
|
|
0 |
|
8681 |
13128 |
7.800000 |
0 |
|
Variant Analysis |
Avian influenza viral strain analysis from gene segment sequencing data |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/aiv-analysis/tutorial.html |
|
Sequence alignment analysis, Generation, Primer removal, Genome indexing, De-novo assembly, Sequence file editing, Sequencing quality control, Sequence analysis, Multiple sequence alignment, Sequence contamination filtering, Data handling, Phylogenetic analysis, Sequence alignment, Read mapping, Data retrieval |
2022-11-21 |
2024-10-04 |
10 |
True |
False |
False |
False |
tp_find_and_replace, bwa_mem, collapse_dataset, samtools_view, ivar_consensus, Grep1, iqtree, seqtk_subseq, fastp, bamtools_split_ref, rbc_mafft, upload1, Show beginning1, vapor, __RELABEL_FROM_FILE__, qualimap_bamqc |
UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
2460 |
3494 |
8.216667 |
0 |
|
Sequence analysis |
Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/tapscan-streptophyte-algae/tutorial.html |
|
Sequence analysis, Multiple sequence alignment, Phylogenetic inference (from molecular sequences), Phylogenetic analysis, Phylogenetic tree editing |
2025-03-26 |
2025-04-27 |
2 |
True |
False |
True |
True |
tapscan_classify, trimal, quicktree, Cut1, Remove beginning1, filter_by_fasta_ids, iqtree, rbc_mafft, Filter1, ete_treeviewer |
UseGalaxy.be, UseGalaxy.eu |
|
0 |
|
453 |
584 |
12.333333 |
0 |
|
Transcriptomics |
Whole transcriptome analysis of Arabidopsis thaliana |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/mirna-target-finder/tutorial.html |
|
Sequence composition calculation, Differential gene expression analysis, Primer removal, Sequence trimming, Sequencing quality control, Read pre-processing, RNA-Seq analysis, RNA-Seq quantification, Visualisation, Validation, Read mapping, Gene expression analysis |
2021-04-08 |
2026-07-07 |
20 |
True |
True |
True |
True |
multiqc, targetfinder, salmon, falco, sample_seqs, deseq2, Cut1, sort1, filter_by_fasta_ids, trim_galore, rbc_mirdeep2_mapper, cat1, Filter1, rbc_mirdeep2_quantifier, __MERGE_COLLECTION__ |
UseGalaxy.cz |
|
0 |
|
3805816 |
8778768 |
8.600000 |
0 |
|
Sequence analysis |
NCBI BLAST+ against the MAdLand |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/ncbi-blast-against-the-madland/tutorial.html |
|
Sequence alignment analysis |
2023-01-16 |
2024-07-31 |
9 |
True |
False |
False |
False |
bg_diamond, ncbi_blastp_wrapper, ncbi_blastx_wrapper |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@Pasteur, IPK Galaxy Blast Suite, UseGalaxy.no |
0 |
|
1974 |
2494 |
10.316667 |
0 |
|
Single Cell |
Analysis of plant scRNA-Seq Data with Scanpy |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-plant/tutorial.html |
|
Differential gene expression analysis, Expression profile clustering, Principal component visualisation |
2021-04-08 |
2026-06-25 |
8 |
True |
False |
True |
True |
scanpy_plot, anndata_manipulate, scanpy_remove_confounders, scanpy_inspect, scanpy_cluster_reduce_dimension, scanpy_filter, scanpy_normalize, anndata_import |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3229 |
4015 |
6.133333 |
0 |
|
Proteomics |
Statistical analysis of DIA data |
https://training.galaxyproject.org//topics/proteomics/tutorials/DIA_Analysis_MSstats/tutorial.html |
|
Spectrum calculation, Tag-based peptide identification, Differential protein expression profiling |
2020-12-02 |
2023-11-09 |
9 |
True |
False |
False |
True |
Filter1, Grep1, msstats, histogram_rpy |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
1553 |
2146 |
9.033333 |
0 |
|
Proteomics |
metaQuantome 3: Taxonomy |
https://training.galaxyproject.org//topics/proteomics/tutorials/metaquantome-taxonomy/tutorial.html |
Proteomics, Proteogenomics, Metatranscriptomics, Microbial ecology, Metagenomics, Taxonomy |
Statistical inference, Functional clustering, Indexing, Quantification, Heat map generation, Filtering, Query and retrieval, Differential protein expression analysis, Principal component visualisation, Visualisation |
2020-10-29 |
2024-03-15 |
14 |
True |
False |
False |
True |
metaquantome_stat, metaquantome_sample, metaquantome_viz, metaquantome_filter, metaquantome_db, metaquantome_expand |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
503 |
644 |
14.733333 |
0 |
|
Proteomics |
Protein FASTA Database Handling |
https://training.galaxyproject.org//topics/proteomics/tutorials/database-handling/tutorial.html |
Proteomics |
|
2017-02-14 |
2025-04-08 |
30 |
True |
False |
False |
True |
addValue, dbbuilder, fasta2tab, tab2fasta, DecoyDatabase, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
5086 |
7955 |
8.150000 |
0 |
|
Proteomics |
EncyclopeDIA |
https://training.galaxyproject.org//topics/proteomics/tutorials/encyclopedia/tutorial.html |
|
Filtering, Formatting |
2021-06-21 |
2025-05-19 |
12 |
True |
False |
True |
True |
msconvert, encyclopedia_searchtolib, encyclopedia_quantify |
|
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
0 |
|
2207 |
2957 |
8.450000 |
0 |
|
Proteomics |
Neoantigen 4: Variant Annotation |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-variant-annotation/tutorial.html |
|
|
2025-01-14 |
2025-12-03 |
5 |
True |
False |
False |
False |
query_tabular, regexColumn1, column_regex_find_and_replace, select, cut, Convert characters1, tab2fasta, pep_pointer |
|
|
0 |
|
197 |
221 |
8.783333 |
0 |
|
Proteomics |
Neoantigen 3: PepQuery2 Verification |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-peptide-verification/tutorial.html |
|
Filtering, Formatting |
2025-01-14 |
2025-12-03 |
4 |
True |
False |
False |
False |
query_tabular, ncbi_blastp_wrapper, msconvert, pepquery2, tab2fasta |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz |
0 |
|
206 |
226 |
11.650000 |
0 |
|
Proteomics |
Secretome Prediction |
https://training.galaxyproject.org//topics/proteomics/tutorials/secretome-prediction/tutorial.html |
|
|
2017-04-13 |
2025-04-08 |
15 |
True |
False |
False |
True |
uniprot, tp_cut_tool, get_subontology_from, Grep1, comp1, tp_sorted_uniq, wolf_psort, term_id_vs_term_name, Convert characters1, Filter1, tp_easyjoin_tool, bg_uniq |
|
|
0 |
|
702 |
1022 |
8.183333 |
0 |
|
Proteomics |
Peptide Library Data Analysis |
https://training.galaxyproject.org//topics/proteomics/tutorials/peptide-library-data-analysis/tutorial.html |
|
|
2021-01-22 |
2023-11-09 |
5 |
True |
False |
False |
True |
pdaug_tsvtofasta, pdaug_basic_plots, pdaug_fishers_plot, pdaug_peptide_sequence_analysis, pdaug_merge_dataframes, pdaug_peptide_data_access, pdaug_addclasslabel, pdaug_sequence_property_based_descriptors |
UseGalaxy.be |
|
0 |
|
842 |
1112 |
10.316667 |
0 |
|
Proteomics |
Peptide and Protein ID using OpenMS tools |
https://training.galaxyproject.org//topics/proteomics/tutorials/protein-id-oms/tutorial.html |
|
Filtering, Formatting |
2017-10-16 |
2025-04-08 |
32 |
True |
False |
False |
True |
IDScoreSwitcher, TextExporter, FalseDiscoveryRate, PeptideIndexer, Grep1, IDFilter, msconvert, IDMerger, ConsensusID, IDPosteriorErrorProbability, FidoAdapter, FileInfo, XTandemAdapter, PeakPickerHiRes, MSGFPlusAdapter |
|
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
3768 |
6210 |
7.766667 |
0 |
|
Proteomics |
Multiomics data analysis using MultiGSEA |
https://training.galaxyproject.org//topics/proteomics/tutorials/multiGSEA-tutorial/tutorial.html |
|
Gene-set enrichment analysis, Aggregation, Pathway analysis |
2025-03-10 |
2025-03-11 |
2 |
True |
False |
False |
True |
Filter1, multigsea, tp_grep_tool |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
595 |
661 |
5.250000 |
0 |
|
Proteomics |
metaQuantome 1: Data creation |
https://training.galaxyproject.org//topics/proteomics/tutorials/metaquantome-data-creation/tutorial.html |
Proteomics, Proteogenomics, Biodiversity, Taxonomy |
Filtering, Prediction and recognition, Visualisation, Formatting, Label-free quantification |
2020-10-16 |
2024-03-14 |
20 |
True |
False |
False |
True |
query_tabular, regex1, Grep1, tp_replace_in_column, msconvert, flashlfq, Cut1, Remove beginning1, peptide_shaker, unipept, search_gui, Filter1, tp_replace_in_line |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no |
0 |
|
962 |
1584 |
9.516667 |
0 |
|
Proteomics |
Library Generation for DIA Analysis |
https://training.galaxyproject.org//topics/proteomics/tutorials/DIA_lib_OSW/tutorial.html |
|
Protein quantification, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Visualisation, Heat map generation |
2020-12-02 |
2025-06-02 |
12 |
True |
False |
False |
True |
OpenSwathAssayGenerator, diapysef, OpenSwathDecoyGenerator, Filter1, maxquant, TargetedFileConverter |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no |
0 |
|
4939 |
6379 |
4.416667 |
0 |
|
Proteomics |
Neoantigen 2: Database merge and FragPipe discovery |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-fragpipe-discovery/tutorial.html |
|
|
2025-01-14 |
2025-12-03 |
4 |
True |
False |
False |
False |
query_tabular, collapse_dataset, fragpipe, Grep1, Remove beginning1, fragpipe_manifest_generator, validate_fasta_database, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
439 |
505 |
7.566667 |
0 |
|
Proteomics |
MaxQuant and MSstats for the analysis of TMT data |
https://training.galaxyproject.org//topics/proteomics/tutorials/maxquant-msstats-tmt/tutorial.html |
|
Protein quantification, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Visualisation, Heat map generation |
2021-08-13 |
2025-01-08 |
11 |
True |
False |
False |
True |
maxquant, msstatstmt |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
4576 |
6092 |
3.916667 |
0 |
|
Proteomics |
Neoantigen 5b: IEDB binding Validated Neopeptides |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-hla-binding-novel-peptides/tutorial.html |
|
|
2025-01-14 |
2025-12-03 |
5 |
True |
False |
False |
False |
query_tabular, iedb_api, table_compute, fasta_to_tabular, Filter1 |
|
|
0 |
|
180 |
193 |
7.316667 |
0 |
|
Proteomics |
Proteogenomics 3: Novel peptide analysis |
https://training.galaxyproject.org//topics/proteomics/tutorials/proteogenomics-novel-peptide-analysis/tutorial.html |
|
|
2018-11-20 |
2025-05-15 |
20 |
True |
False |
True |
True |
query_tabular, peptide_genomic_coordinate, ncbi_blastp_wrapper, pep_pointer |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.no |
0 |
|
1917 |
2721 |
13.683333 |
0 |
|
Proteomics |
Peptide and Protein ID using SearchGUI and PeptideShaker |
https://training.galaxyproject.org//topics/proteomics/tutorials/protein-id-sg-ps/tutorial.html |
|
|
2017-06-12 |
2025-04-08 |
28 |
True |
False |
False |
True |
Grep1, peptide_shaker, FileConverter, search_gui, PeakPickerHiRes |
|
|
0 |
|
3491 |
5428 |
6.183333 |
0 |
|
Proteomics |
Clinical Metaproteomics 1: Database-Generation |
https://training.galaxyproject.org//topics/proteomics/tutorials/clinical-mp-1-database-generation/tutorial.html |
|
Expression analysis, Tag-based peptide identification, Protein identification, de Novo sequencing, Target-Decoy |
2024-02-06 |
2025-07-30 |
7 |
True |
False |
True |
True |
dbbuilder, uniprotxml_downloader, metanovo, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.org (Main) |
0 |
|
761 |
1085 |
18.500000 |
0 |
|
Proteomics |
Mass spectrometry imaging: Loading and exploring MSI data |
https://training.galaxyproject.org//topics/proteomics/tutorials/mass-spectrometry-imaging-loading-exploring-data/tutorial.html |
Proteomics |
|
2018-11-27 |
2025-04-08 |
18 |
True |
False |
False |
True |
cardinal_data_exporter, Grep1, cardinal_quality_report, tp_sort_header_tool |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3060 |
4580 |
5.683333 |
0 |
|
Proteomics |
Detection and quantitation of N-termini (degradomics) via N-TAILS |
https://training.galaxyproject.org//topics/proteomics/tutorials/ntails/tutorial.html |
Proteomics |
|
2017-02-14 |
2025-04-08 |
16 |
True |
False |
False |
True |
FileFilter, MzTabExporter, FalseDiscoveryRate, PeptideIndexer, IDFilter, IDMerger, FeatureFinderMultiplex, ConsensusID, IDConflictResolver, HighResPrecursorMassCorrector, FileMerger, MSGFPlusAdapter, IDMapper |
|
|
0 |
|
990 |
1321 |
6.050000 |
0 |
|
Proteomics |
Neoantigen 5a: Predicting HLA Binding |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-predicting-hla-binding/tutorial.html |
|
Genetic variation analysis, Read mapping |
2025-01-14 |
2025-12-03 |
4 |
True |
False |
False |
False |
query_tabular, seq2hla, optitype, tp_awk_tool |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
200 |
214 |
12.766667 |
0 |
|
Proteomics |
Machine Learning Modeling of Anticancer Peptides |
https://training.galaxyproject.org//topics/proteomics/tutorials/ml-modeling-of-anti-cancer-peptides/tutorial.html |
|
|
2021-01-22 |
2023-11-09 |
8 |
True |
False |
False |
True |
pdaug_ml_models, pdaug_basic_plots, pdaug_merge_dataframes, pdaug_addclasslabel, pdaug_sequence_property_based_descriptors |
UseGalaxy.be |
|
0 |
|
1156 |
1685 |
11.516667 |
0 |
|
Proteomics |
Clinical Metaproteomics 5: Data Interpretation |
https://training.galaxyproject.org//topics/proteomics/tutorials/clinical-mp-5-data-interpretation/tutorial.html |
|
Prediction and recognition, Visualisation |
2024-02-06 |
2025-08-10 |
4 |
True |
False |
True |
True |
Grep1, unipept, msstatstmt |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
392 |
493 |
21.716667 |
0 |
|
Proteomics |
metaQuantome 2: Function |
https://training.galaxyproject.org//topics/proteomics/tutorials/metaquantome-function/tutorial.html |
Proteomics, Proteogenomics, Metatranscriptomics, Microbial ecology, Metagenomics |
Statistical inference, Functional clustering, Indexing, Quantification, Heat map generation, Filtering, Query and retrieval, Differential protein expression analysis, Principal component visualisation, Visualisation |
2020-10-29 |
2024-03-15 |
14 |
True |
False |
False |
True |
metaquantome_stat, metaquantome_sample, metaquantome_viz, metaquantome_filter, metaquantome_db, metaquantome_expand |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
480 |
655 |
14.933333 |
0 |
|
Proteomics |
Proteogenomics 1: Database Creation |
https://training.galaxyproject.org//topics/proteomics/tutorials/proteogenomics-dbcreation/tutorial.html |
|
RNA-Seq analysis, Transcriptome assembly, Sequence annotation, Statistical calculation, Variant calling, Sequence alignment |
2018-11-20 |
2026-04-20 |
30 |
True |
False |
True |
True |
gffcompare_to_bed, filter_tabular, regexColumn1, query_tabular, freebayes, tp_replace_in_column, bed_to_protein_map, translate_bed, hisat2, custom_pro_db, fasta2tab, sqlite_to_tabular, cat_multi_datasets, gffcompare, tab2fasta, stringtie, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
6495 |
10446 |
6.916667 |
0 |
|
Proteomics |
Clinical Metaproteomics 2: Discovery |
https://training.galaxyproject.org//topics/proteomics/tutorials/clinical-mp-2-discovery/tutorial.html |
|
Protein quantification, Filtering, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Visualisation, Formatting, Heat map generation |
2024-02-06 |
2025-08-10 |
5 |
True |
False |
True |
True |
filter_tabular, query_tabular, fasta_cli, tp_cat, Grep1, ident_params, msconvert, peptide_shaker, Cut1, Remove beginning1, dbbuilder, fasta2tab, search_gui, Filter1, Grouping1, maxquant, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.fr |
0 |
|
452 |
574 |
22.316667 |
0 |
|
Proteomics |
Annotating a protein list identified by LC-MS/MS experiments |
https://training.galaxyproject.org//topics/proteomics/tutorials/proteome_annotation/tutorial.html |
|
|
2019-09-12 |
2024-06-14 |
11 |
True |
False |
True |
True |
retrieve_from_hpa, rna_abbased_data, MQoutputfilter, IDconverter, Jvenn, reactome_analysis, cluter_profiler |
UseGalaxy.be |
UseGalaxy.fr |
0 |
|
3285 |
4703 |
8.216667 |
0 |
|
Proteomics |
Single Cell Proteomics data analysis with bioconductor-scp |
https://training.galaxyproject.org//topics/proteomics/tutorials/bioconductor-scp/tutorial.html |
|
Expression analysis, Visualisation |
2025-02-07 |
2025-02-10 |
2 |
True |
False |
False |
False |
Grouping1, bioconductor_scp |
UseGalaxy.org.au, UseGalaxy.eu |
|
0 |
|
507 |
579 |
5.616667 |
0 |
|
Proteomics |
DIA Analysis using OpenSwathWorkflow |
https://training.galaxyproject.org//topics/proteomics/tutorials/DIA_Analysis_OSW/tutorial.html |
|
Filtering, Formatting |
2020-12-02 |
2025-05-20 |
12 |
True |
False |
False |
True |
pyprophet_merge, OpenSwathWorkflow, pyprophet_peptide, pyprophet_score, Grep1, msconvert, pyprophet_export, pyprophet_protein |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no |
0 |
|
3544 |
4948 |
8.183333 |
0 |
|
Proteomics |
Biomarker candidate identification |
https://training.galaxyproject.org//topics/proteomics/tutorials/biomarker_selection/tutorial.html |
|
|
2019-06-13 |
2023-11-09 |
9 |
True |
False |
False |
True |
prot_features, retrieve_from_hpa, tp_cut_tool, retr_pepatlas1, rna_abbased_data, MQoutputfilter, IDconverter, Jvenn |
|
UseGalaxy.be, UseGalaxy.fr |
0 |
|
1906 |
2580 |
9.983333 |
0 |
|
Proteomics |
Clinical Metaproteomics 4: Quantitation |
https://training.galaxyproject.org//topics/proteomics/tutorials/clinical-mp-4-quantitation/tutorial.html |
|
Protein quantification, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Visualisation, Heat map generation |
2024-02-06 |
2025-08-10 |
5 |
True |
False |
True |
True |
Grouping1, Grep1, maxquant, Cut1 |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
266 |
336 |
27.316667 |
0 |
|
Proteomics |
Proteogenomics 2: Database Search |
https://training.galaxyproject.org//topics/proteomics/tutorials/proteogenomics-dbsearch/tutorial.html |
|
Conversion, Peptide database search |
2018-11-20 |
2026-04-22 |
25 |
True |
False |
True |
True |
query_tabular, ident_params, peptide_shaker, search_gui, mz_to_sqlite, tab2fasta |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
1742 |
2541 |
12.616667 |
0 |
|
Proteomics |
Neoantigen 1a: Fusion-Database-Generation |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-fusion-database-generation/tutorial.html |
|
Sequence alignment |
2025-01-14 |
2025-12-03 |
4 |
True |
False |
False |
False |
CONVERTER_gz_to_uncompressed, query_tabular, regex1, arriba_get_filters, arriba, tp_awk_tool, rna_star, tab2fasta |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
345 |
429 |
5.766667 |
0 |
|
Proteomics |
Peptide and Protein Quantification via Stable Isotope Labelling (SIL) |
https://training.galaxyproject.org//topics/proteomics/tutorials/protein-quant-sil/tutorial.html |
|
|
2017-03-17 |
2025-04-08 |
32 |
True |
False |
False |
True |
IDScoreSwitcher, ProteinQuantifier, TextExporter, histogram_rpy, FalseDiscoveryRate, PeptideIndexer, Grep1, MultiplexResolver, FeatureFinderMultiplex, IDPosteriorErrorProbability, FidoAdapter, tp_tail_tool, Summary_Statistics1, FileInfo, IDConflictResolver, XTandemAdapter, IDMapper |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.no |
0 |
|
1515 |
2056 |
9.233333 |
0 |
|
Proteomics |
Clinical Metaproteomics 3: Verification |
https://training.galaxyproject.org//topics/proteomics/tutorials/clinical-mp-3-verification/tutorial.html |
|
|
2024-02-06 |
2025-08-10 |
7 |
True |
False |
True |
True |
query_tabular, tp_cat, collapse_dataset, Cut1, Remove beginning1, dbbuilder, uniprotxml_downloader, pepquery2, Filter1, Grouping1, fasta_merge_files_and_filter_unique_sequences |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.org (Main) |
0 |
|
286 |
371 |
25.683333 |
0 |
|
Proteomics |
MaxQuant and MSstats for the analysis of label-free data |
https://training.galaxyproject.org//topics/proteomics/tutorials/maxquant-msstats-dda-lfq/tutorial.html |
|
Protein quantification, Tag-based peptide identification, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Spectrum calculation, Differential protein expression profiling, Visualisation, Heat map generation |
2021-02-17 |
2025-09-22 |
19 |
True |
False |
True |
True |
uniprot, Grep1, tp_replace_in_column, Cut1, ggplot2_heatmap2, Summary_Statistics1, fasta2tab, msstats, datamash_ops, Filter1, tp_easyjoin_tool, maxquant |
|
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
9350 |
14789 |
6.333333 |
0 |
|
Proteomics |
Metaproteomics tutorial |
https://training.galaxyproject.org//topics/proteomics/tutorials/metaproteomics/tutorial.html |
Proteomics, Proteogenomics, Biodiversity, Taxonomy |
Prediction and recognition, Visualisation |
2017-06-28 |
2026-05-11 |
42 |
True |
False |
True |
True |
query_tabular, peptide_shaker, unipept, search_gui, sqlite_to_tabular |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3200 |
4994 |
10.166667 |
0 |
|
Proteomics |
Neoantigen 1b: Non-Reference-Database-Generation |
https://training.galaxyproject.org//topics/proteomics/tutorials/neoantigen-non-reference-database-generation/tutorial.html |
|
RNA-Seq analysis, Transcriptome assembly, Sequence annotation, Statistical calculation, Variant calling, Sequence alignment |
2025-01-14 |
2025-12-03 |
6 |
True |
False |
False |
False |
CONVERTER_gz_to_uncompressed, gffcompare_to_bed, regexColumn1, freebayes, bed_to_protein_map, translate_bed, hisat2, column_regex_find_and_replace, custom_pro_db, fasta2tab, sqlite_to_tabular, concatenate, gffcompare, tab2fasta, stringtie, fasta_merge_files_and_filter_unique_sequences |
|
|
0 |
|
239 |
269 |
8.466667 |
0 |
|
Proteomics |
Label-free data analysis using MaxQuant |
https://training.galaxyproject.org//topics/proteomics/tutorials/maxquant-label-free/tutorial.html |
|
Protein quantification, Tag-based peptide identification, Clustering, Standardisation and normalisation, Imputation, Statistical calculation, Principal component plotting, Spectrum calculation, Differential protein expression profiling, Visualisation, Heat map generation |
2020-04-29 |
2025-05-21 |
14 |
True |
False |
False |
True |
histogram_rpy, Grep1, Cut1, Add_a_column1, msstats, Filter1, maxquant, tp_sort_header_tool |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
21166 |
30675 |
3.733333 |
0 |
|
Proteomics |
Introduction to proteomics, protein identification, quantification and statistical modelling |
https://training.galaxyproject.org//topics/proteomics/tutorials/introduction/slides.html |
|
|
2017-12-01 |
2024-08-08 |
3 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280371 |
2.083333 |
0 |
|
Proteomics |
Label-free versus Labelled - How to Choose Your Quantitation Method |
https://training.galaxyproject.org//topics/proteomics/tutorials/labelfree-vs-labelled/tutorial.html |
|
|
2017-03-17 |
2025-05-27 |
18 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
7849 |
12572 |
2.600000 |
0 |
|
Sequence analysis |
Screening assembled genomes for contamination using NCBI FCS |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/ncbi-fcs/tutorial.html |
|
Sequence trimming, Sequence assembly validation, Sequence contamination filtering |
2024-04-16 |
2024-04-16 |
2 |
True |
False |
False |
True |
ncbi_fcs_gx, ncbi_fcs_adaptor |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
2530 |
3342 |
3.916667 |
0 |
|
Sequence analysis |
Mapping |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/mapping/tutorial.html |
Mapping |
Genome visualisation, Sequence alignment analysis, Sequence composition calculation, Primer removal, Sequence trimming, Read pre-processing, Sequencing quality control, Statistical calculation, Data handling, Validation, Read mapping |
2016-10-04 |
2026-03-30 |
46 |
True |
True |
True |
True |
multiqc, bamFilter, samtools_stats, __FLATTEN__, bowtie2, trim_galore, fastqc, jbrowse |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
4014497 |
9396758 |
9.500000 |
0 |
|
Sequence analysis |
Quality Control |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/quality-control/tutorial.html |
|
Sequence composition calculation, Primer removal, Scatter plot plotting, Sequence trimming, Box-Whisker plot plotting, Read pre-processing, Sequencing quality control, Statistical calculation, Validation |
2016-10-04 |
2026-03-30 |
49 |
True |
True |
True |
True |
nanoplot, multiqc, fastqe, cutadapt, pycoqc, fastqc |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
4060584 |
9488625 |
9.066667 |
0 |
|
Sequence analysis |
Clean and manage Sanger sequences from raw files to aligned consensus |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/Manage_AB1_Sanger/tutorial.html |
|
Sequence clustering, DNA barcoding, Demultiplexing, Sequence file editing, Sequence read processing, Sequencing quality control, Taxonomic classification, Data handling, Phylogenetic analysis, Visualisation |
2024-01-08 |
2024-03-05 |
2 |
True |
False |
False |
True |
__FILTER_FROM_FILE__, collection_element_identifiers, mothur_degap_seqs, ab1_fastq_converter, seqtk_trimfq, filter_by_fasta_ids, seqtk_mergepe, mothur_merge_files, fastq_masker_by_quality, regex1, cshl_fastx_reverse_complement, qiime_align_seqs, ncbi_blastn_wrapper, aligned_to_consensus, fastq_to_tabular, fastq_groomer, cshl_fastq_to_fasta, unzip, tab2fasta, __SORTLIST__ |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
4216 |
5196 |
6.216667 |
0 |
|
Sequence analysis |
Quality and contamination control in bacterial isolate using Illumina MiSeq Data |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/quality-contamination-control/tutorial.html |
Whole genome sequencing, Genomics, Microbiology, Microbial ecology |
Cross-assembly, Expression analysis, Sequencing quality control, Taxonomic classification, Read mapping, Statistical calculation, Visualisation, Sequence contamination filtering |
2024-07-15 |
2025-12-18 |
5 |
True |
False |
True |
True |
kraken2, fastp, est_abundance, recentrifuge, upload1, falco |
GalaxyTrakr, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
2207 |
2894 |
10.250000 |
0 |
|
Sequence analysis |
Primer and primer scheme design for pan-specific detection and sequencing of viral pathogens across genotypes |
https://training.galaxyproject.org//topics/sequence-analysis/tutorials/viral_primer_design/tutorial.html |
|
Sequence alignment analysis, Local alignment, Sequence analysis, Multiple sequence alignment, PCR primer design, Global alignment, Sequence alignment |
2025-03-20 |
2025-11-20 |
3 |
True |
False |
False |
True |
split_file_to_collection, EMBOSS: degapseq20, varvamp, rbc_mafft, ncbi_makeblastdb, fasta_compute_length |
UseGalaxy.be, UseGalaxy.eu |
|
0 |
|
1224 |
1455 |
3.050000 |
0 |
|
Single Cell |
Bulk RNA Deconvolution with MuSiC |
https://training.galaxyproject.org//topics/single-cell/tutorials/bulk-music/tutorial.html |
|
|
2022-02-11 |
2026-06-25 |
11 |
True |
False |
True |
True |
music_construct_eset, music_deconvolution, music_inspect_eset |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
4585 |
5708 |
4.000000 |
0 |
|
Single Cell |
GO Enrichment Analysis on Single-Cell RNA-Seq Data |
https://training.galaxyproject.org//topics/single-cell/tutorials/GO-enrichment/tutorial.html |
|
Gene-set enrichment analysis |
2024-09-17 |
2026-06-25 |
9 |
True |
True |
False |
True |
gprofiler_gost, goenrichment, tp_split_on_column, Cut1 |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
|
0 |
|
1849291 |
3454776 |
5.716667 |
0 |
|
Single Cell |
Converting between common single cell data formats |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-data-ingest/tutorial.html |
|
Loading, Community profiling |
2024-02-13 |
2026-06-25 |
5 |
True |
False |
False |
True |
anndata_ops, fastq_to_tabular, regexColumn1, tp_cut_tool, monocle3_create, sceasy_convert, Cut1, seurat_read10x, datamash_transpose, join1, tp_tail_tool, anndata_inspect, dropletutils, dropletutils_read_10x, Filter1, scanpy_filter_cells, tabular_to_fastq |
|
UseGalaxy.org (Main) |
0 |
|
3178 |
3721 |
3.900000 |
0 |
|
Single Cell |
Single-cell quality control with scater |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-scater-qc/tutorial.html |
|
Sequence visualisation, Read pre-processing, Sequencing quality control |
2019-10-23 |
2025-02-14 |
6 |
True |
False |
False |
True |
scater_plot_dist_scatter, scater_create_qcmetric_ready_sce, scater_filter, scater_plot_pca |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no |
UseGalaxy.cz |
0 |
|
800 |
895 |
6.383333 |
0 |
|
Single Cell |
Generating a single cell matrix using Alevin |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_alevin/tutorial.html |
|
Sequence composition calculation, RNA-Seq quantification, Gene expression analysis |
2021-03-03 |
2025-11-18 |
25 |
True |
False |
True |
True |
dropletutils_empty_drops, anndata_manipulate, _ensembl_gtf2gene_list, _salmon_kallisto_mtx_to_10x, Cut1, sceasy_convert, join1, anndata_inspect, dropletutils_read_10x, alevin, _dropletBarcodePlot |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
3907 |
5889 |
10.916667 |
0 |
|
Single Cell |
Pre-processing of 10X Single-Cell ATAC-seq Datasets |
https://training.galaxyproject.org//topics/single-cell/tutorials/scatac-preprocessing-tenx/tutorial.html |
|
Sequence composition calculation, Generation, Differential gene expression analysis, Gene regulatory network analysis, Genome indexing, Peak calling, Enrichment analysis, Sequencing quality control, Mapping, Imputation, Expression profile clustering, Statistical calculation, Principal component visualisation, Visualisation, Sequence alignment, Read mapping |
2023-04-24 |
2025-10-16 |
10 |
True |
False |
False |
True |
bwa_mem, scanpy_plot, macs2_callpeak, tp_sorted_uniq, sinto_barcode, episcanpy_preprocess, episcanpy_build_matrix, fastqc, falco, anndata_inspect, sinto_fragments, bedtools_sortbed |
UseGalaxy.org.au, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz |
0 |
|
6692 |
7881 |
2.450000 |
0 |
|
Single Cell |
Pseudobulk Analysis with Decoupler and EdgeR |
https://training.galaxyproject.org//topics/single-cell/tutorials/pseudobulk-analysis/tutorial.html |
|
Principal component visualisation, Differential gene expression analysis, Expression profile clustering |
2025-02-12 |
2025-05-09 |
8 |
True |
False |
True |
True |
decoupler_pseudobulk, anndata_manipulate, volcanoplot, tp_replace_in_column, __EXTRACT_DATASET__, edger, scanpy_filter, column_remove_by_header, tp_awk_tool, anndata_inspect, tp_replace_in_line |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
2444 |
2771 |
2.833333 |
0 |
|
Single Cell |
Pre-processing of 10X Single-Cell RNA Datasets |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-preprocessing-tenx/tutorial.html |
|
Loading, Sequence alignment, Community profiling, Validation, Sequencing quality control |
2019-09-11 |
2025-04-29 |
13 |
True |
False |
True |
True |
multiqc, dropletutils, rna_starsolo |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.fr, UseGalaxy.no |
0 |
|
14314 |
18515 |
5.783333 |
0 |
|
Single Cell |
Pre-processing of Single-Cell RNA Data |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-preprocessing/tutorial.html |
|
Sequence alignment analysis, RNA-Seq quantification, Sequence alignment, Data handling, Read summarisation, Validation, Sequencing quality control |
2019-02-22 |
2025-04-08 |
5 |
True |
True |
False |
True |
multiqc, umi_tools_count, bamFilter, samtools_stats, collection_column_join, tp_sed_tool, __FLATTEN__, umi_tools_extract, rna_star, featurecounts |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
3950914 |
9289374 |
8.566667 |
0 |
|
Single Cell |
An introduction to scRNA-seq data analysis |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-intro/slides.html |
|
|
2021-01-29 |
2025-02-13 |
8 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3911580 |
9166329 |
2.066667 |
0 |
|
Single Cell |
Generating a single cell matrix using Alevin and combining datasets (bash + R) |
https://training.galaxyproject.org//topics/single-cell/tutorials/alevin-commandline/tutorial.html |
|
|
2023-12-08 |
2025-04-22 |
5 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
781 |
1032 |
10.033333 |
0 |
|
Single Cell |
Understanding Barcodes |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-umis/tutorial.html |
|
Statistical calculation, Sequence composition calculation, Sequencing quality control |
2019-02-20 |
2026-06-25 |
12 |
True |
False |
True |
True |
umi_tools_extract, fastqc, seq_filter_by_id |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, UseGalaxy.no |
0 |
|
6988 |
8658 |
5.100000 |
0 |
|
Single Cell |
Filter, plot, and explore single cell RNA-seq data with Seurat (R) |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_FilterPlotandExploreRStudio/tutorial.html |
|
|
2023-10-02 |
2025-03-11 |
11 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3904 |
4419 |
3.283333 |
0 |
|
Single Cell |
Clustering 3K PBMCs with Scanpy |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-scanpy-pbmc3k/tutorial.html |
|
Differential gene expression analysis, Expression profile clustering, Principal component visualisation |
2019-12-19 |
2026-05-05 |
17 |
True |
True |
True |
True |
scanpy_plot, anndata_manipulate, celltypist, scanpy_remove_confounders, scanpy_inspect, scanpy_cluster_reduce_dimension, scanpy_filter, scanpy_normalize, datamash_ops, anndata_import, anndata_inspect |
UseGalaxy.eu |
|
0 |
|
3953167 |
9293290 |
8.050000 |
0 |
|
Single Cell |
Downstream Single-cell RNA analysis with RaceID |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-raceid/tutorial.html |
|
Expression analysis, Molecular dynamics, Expression profile clustering |
2019-03-25 |
2025-02-14 |
7 |
True |
False |
False |
True |
raceid_inspecttrajectory, raceid_inspectclusters, tp_sed_tool, datamash_transpose, raceid_filtnormconf, datamash_ops, raceid_trajectory, tp_head_tool, raceid_clustering |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
1211 |
1422 |
7.650000 |
0 |
|
Single Cell |
Importing files from public atlases |
https://training.galaxyproject.org//topics/single-cell/tutorials/EBI-retrieval/tutorial.html |
|
|
2023-11-14 |
2026-06-25 |
9 |
True |
False |
True |
True |
anndata_ops, tp_find_and_replace, regexColumn1, hca_matrix_downloader, sceasy_convert, tp_grep_tool, seurat_read10x, retrieve_scxa, scanpy_read_10x |
|
|
0 |
|
698 |
892 |
11.883333 |
0 |
|
Single Cell |
Single-cell ATAC-seq standard processing with SnapATAC2 |
https://training.galaxyproject.org//topics/single-cell/tutorials/scatac-standard-processing-snapatac2/tutorial.html |
|
Essential dynamics, Dimensionality reduction, Generation, Differential gene expression analysis, Genome indexing, Gene expression profiling, Expression profile clustering, Principal component visualisation, Sequence alignment, Read mapping |
2024-07-11 |
2025-07-02 |
5 |
True |
False |
False |
True |
anndata_ops, bwa_mem, snapatac2_peaks_and_motif, snapatac2_plotting, scanpy_plot, anndata_manipulate, replace_column_with_key_value_file, Cut1, scanpy_inspect, scanpy_filter, scanpy_normalize, snapatac2_clustering, fasta_compute_length, snapatac2_preprocessing, anndata_inspect |
|
|
0 |
|
2266 |
2656 |
3.083333 |
0 |
|
Single Cell |
Removing the effects of the cell cycle |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_cell-cycle/tutorial.html |
|
Differential gene expression analysis, Expression profile clustering, Principal component visualisation |
2023-01-25 |
2026-06-25 |
16 |
True |
False |
False |
True |
scanpy_plot, anndata_manipulate, addValue, table_compute, sort1, scanpy_inspect, scanpy_cluster_reduce_dimension, scanpy_regress_variable, cat1, tp_easyjoin_tool, anndata_inspect |
|
|
0 |
|
2412 |
2823 |
3.183333 |
0 |
|
Single Cell |
Comparing inferred cell compositions using MuSiC deconvolution |
https://training.galaxyproject.org//topics/single-cell/tutorials/bulk-music-4-compare/tutorial.html |
|
|
2023-01-20 |
2026-06-25 |
11 |
True |
False |
False |
True |
music_compare |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
383 |
537 |
12.616667 |
0 |
|
Single Cell |
Combining single cell datasets after pre-processing |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_alevin-combine-datasets/tutorial.html |
|
|
2022-09-08 |
2025-11-18 |
23 |
True |
False |
True |
True |
anndata_ops, anndata_manipulate, tp_replace_in_column, Cut1, Paste1, anndata_inspect |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
2784 |
3864 |
10.550000 |
0 |
|
Single Cell |
Filter, plot and explore single-cell RNA-seq data with Scanpy (Python) |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case-jupyter_basic-pipeline/tutorial.html |
|
|
2023-08-25 |
2025-03-11 |
13 |
True |
False |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3828 |
4503 |
4.133333 |
0 |
|
Single Cell |
Converting NCBI Data to the AnnData Format |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-ncbi-anndata/tutorial.html |
|
|
2023-12-13 |
2026-06-25 |
8 |
True |
False |
True |
True |
anndata_ops, anndata_manipulate, tp_replace_in_column, unzip, Cut1, Paste1, anndata_inspect, anndata_import, scanpy_filter_cells |
UseGalaxy.org.au, UseGalaxy.be |
UseGalaxy.cz, UseGalaxy.org (Main) |
0 |
|
593 |
689 |
11.283333 |
0 |
|
Single Cell |
Multi-sample batch correction with Harmony and SnapATAC2 |
https://training.galaxyproject.org//topics/single-cell/tutorials/scatac-batch-correction-snapatac2/tutorial.html |
|
Essential dynamics, Dimensionality reduction, Gene expression profiling |
2025-02-28 |
2025-07-02 |
2 |
True |
False |
False |
True |
snapatac2_peaks_and_motif, snapatac2_plotting, collection_element_identifiers, anndata_manipulate, __EXTRACT_DATASET__, snapatac2_clustering, fasta_compute_length, Show beginning1, snapatac2_preprocessing, anndata_inspect, __FILTER_FROM_FILE__ |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
809 |
887 |
2.566667 |
0 |
|
Single Cell |
Filter, plot and explore single-cell RNA-seq data with Scanpy |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_basic-pipeline/tutorial.html |
|
Differential gene expression analysis, Expression profile clustering, Principal component visualisation |
2021-03-24 |
2025-04-23 |
24 |
True |
False |
True |
True |
scanpy_compute_graph, scanpy_normalise_data, scanpy_find_cluster, scanpy_plot_embed, scanpy_normalize, scanpy_scale_data, anndata_inspect, anndata_ops, scanpy_plot, scanpy_filter_genes, scanpy_cluster_reduce_dimension, interactive_tool_cellxgene_vip, scanpy_run_pca, Cut1, scanpy_inspect, scanpy_filter, scanpy_run_umap, retrieve_scxa, scanpy_filter_cells, scanpy_find_variable_genes, scanpy_find_markers, scanpy_run_tsne, anndata_manipulate, join1 |
|
|
0 |
|
6016 |
9330 |
7.750000 |
0 |
|
Single Cell |
Evaluating Reference Data for Bulk RNA Deconvolution |
https://training.galaxyproject.org//topics/single-cell/tutorials/bulk-deconvolution-evaluate/tutorial.html |
|
Annotation, Visualisation |
2025-02-02 |
2026-06-25 |
4 |
True |
False |
False |
True |
music_construct_eset, collection_column_join, table_compute, Remove beginning1, bg_column_arrange_by_header, ggplot2_violin, ggplot2_point, Count1, Add_a_column1, tp_cut_tool, music_deconvolution, Cut1, Paste1, tp_sed_tool, datamash_transpose, __DUPLICATE_FILE_TO_COLLECTION__, collapse_dataset, tp_multijoin_tool, annotatemyids, join1, tp_awk_tool, tp_easyjoin_tool |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.be, UseGalaxy.cz |
0 |
|
220 |
248 |
12.400000 |
0 |
|
Single Cell |
Clustering 3K PBMCs with Seurat |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-seurat-pbmc3k/tutorial.html |
|
|
2025-01-23 |
2025-05-09 |
5 |
True |
False |
True |
True |
seurat_create, seurat_reduce_dimension, seurat_clustering, Cut1, seurat_preprocessing, Filter1, seurat_plot, seurat_data, csv_to_tabular |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
MISSISSIPPI |
0 |
|
2582 |
3136 |
4.833333 |
0 |
|
Single Cell |
Filter, plot, and explore single cell RNA-seq data with Seurat |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_FilterPlotandExplore_SeuratTools/tutorial.html |
|
|
2024-04-09 |
2025-03-11 |
10 |
True |
False |
False |
True |
seurat_scale_data, seurat_find_variable_genes, seurat_find_neighbours, seurat_find_clusters, seurat_find_markers, seurat_filter_cells, seurat_read10x, retrieve_scxa, seurat_normalise_data, seurat_run_umap, seurat_plot, seurat_run_pca |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
2813 |
3333 |
5.716667 |
0 |
|
Single Cell |
Scanpy Parameter Iterator |
https://training.galaxyproject.org//topics/single-cell/tutorials/scanpy_parameter_iterator/tutorial.html |
|
|
2023-07-19 |
2026-06-25 |
9 |
True |
False |
False |
True |
scanpy_compute_graph, scanpy_run_tsne, scanpy_find_cluster, scanpy_parameter_iterator, scanpy_plot_embed, scanpy_run_umap |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.org (Main) |
|
0 |
|
374 |
411 |
7.833333 |
0 |
|
Single Cell |
Plates, Batches, and Barcodes |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-plates-batches-barcodes/slides.html |
|
|
2019-02-16 |
2025-02-13 |
4 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280371 |
2.083333 |
0 |
|
Single Cell |
Inferring single cell trajectories with Scanpy (Python) |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_JUPYTER-trajectories/tutorial.html |
|
|
2021-04-07 |
2025-03-11 |
20 |
True |
False |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
5209 |
6067 |
3.683333 |
0 |
|
Single Cell |
Inferring single cell trajectories with Scanpy |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_trajectories/tutorial.html |
|
|
2023-12-08 |
2025-03-11 |
13 |
True |
False |
False |
True |
scanpy_compute_graph, scanpy_run_paga, scanpy_run_fdg, anndata_manipulate, scanpy_run_diffmap, scanpy_find_cluster, scanpy_plot_embed, scanpy_run_dpt, scanpy_plot_trajectory |
|
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.org (Main) |
0 |
|
1571 |
1946 |
7.616667 |
0 |
|
Single Cell |
Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution |
https://training.galaxyproject.org//topics/single-cell/tutorials/bulk-music-2-preparescref/tutorial.html |
|
Annotation |
2023-01-20 |
2026-06-25 |
9 |
True |
False |
False |
True |
music_construct_eset, tp_cut_tool, regex1, table_compute, annotatemyids, Cut1, tp_sed_tool, sort1, add_line_to_file, join1, datamash_transpose, tp_awk_tool, retrieve_scxa, music_manipulate_eset, scanpy_read_10x, tp_easyjoin_tool, anndata_inspect |
|
UseGalaxy.cz |
0 |
|
834 |
1342 |
7.933333 |
0 |
|
Single Cell |
Batch Correction and Integration with Seurat or Scanpy |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna_batch_correction/tutorial.html |
|
Differential gene expression analysis, Expression profile clustering, Principal component visualisation |
2026-07-09 |
2026-07-09 |
1 |
True |
False |
False |
True |
scanpy_plot, seurat_reduce_dimension, seurat_clustering, scanpy_remove_confounders, Count1, scanpy_inspect, scanpy_filter, scanpy_cluster_reduce_dimension, scanpy_normalize, seurat_preprocessing, seurat_integrate, anndata_inspect, seurat_plot, seurat_data |
UseGalaxy.org.au, UseGalaxy.eu |
UseGalaxy.org (Main) |
0 |
|
7 |
7 |
10.550000 |
0 |
|
Single Cell |
Single-cell Formats and Resources |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-data-formats/slides.html |
|
|
2024-07-26 |
2025-02-13 |
4 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
1918901 |
3625142 |
1.583333 |
0 |
|
Single Cell |
Inferring single cell trajectories with Monocle3 (R) |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_monocle3-rstudio/tutorial.html |
|
|
2023-04-12 |
2025-03-11 |
13 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
7532 |
8490 |
1.550000 |
0 |
|
Single Cell |
Inferring single cell trajectories with Monocle3 |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case_monocle3-trajectories/tutorial.html |
|
|
2022-09-30 |
2025-04-23 |
24 |
True |
False |
True |
True |
monocle3_diffExp, monocle3_reduceDim, regexColumn1, tp_cut_tool, monocle3_create, monocle3_plotCells, monocle3_topmarkers, Cut1, datamash_transpose, monocle3_partition, join1, anndata_inspect, Filter1, monocle3_learnGraph, monocle3_orderCells, monocle3_preprocess |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
4402 |
5417 |
3.933333 |
0 |
|
Single Cell |
Bulk matrix to ESet | Creating the bulk RNA-seq dataset for deconvolution |
https://training.galaxyproject.org//topics/single-cell/tutorials/bulk-music-3-preparebulk/tutorial.html |
|
Annotation |
2023-01-20 |
2026-06-25 |
9 |
True |
False |
False |
True |
music_construct_eset, tp_cut_tool, regex1, table_compute, annotatemyids, tp_sed_tool, sort1, column_remove_by_header, tp_awk_tool, music_manipulate_eset, tp_easyjoin_tool |
|
UseGalaxy.cz |
0 |
|
871 |
1296 |
8.116667 |
0 |
|
Single Cell |
Trajectory analysis |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-trajectories/slides.html |
|
|
2022-09-30 |
2025-02-13 |
4 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2988697 |
6194055 |
1.866667 |
0 |
|
Single Cell |
Automated Cell Annotation |
https://training.galaxyproject.org//topics/single-cell/tutorials/scrna-case-cell-annotation/slides.html |
|
|
2023-09-04 |
2025-02-27 |
7 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2382056 |
4746047 |
1.750000 |
0 |
|
Statistics and machine learning |
Machine learning: classification and regression |
https://training.galaxyproject.org//topics/statistics/tutorials/classification_regression/tutorial.html |
|
|
2019-03-07 |
2025-04-08 |
13 |
True |
False |
False |
True |
sklearn_ensemble, plotly_ml_performance_plots, sklearn_svm_classifier, plotly_regression_performance_plots |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
|
0 |
|
5890 |
10452 |
2.566667 |
0 |
|
Statistics and machine learning |
Clustering in Machine Learning |
https://training.galaxyproject.org//topics/statistics/tutorials/clustering_machinelearning/tutorial.html |
|
Visualisation |
2020-05-08 |
2025-04-08 |
14 |
True |
False |
False |
True |
sklearn_numeric_clustering, ggplot2_point, csv_to_tabular |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
8809 |
14412 |
2.500000 |
0 |
|
Statistics and machine learning |
GLEAM Image Learner - Validating Skin Lesion Classification on HAM10000 |
https://training.galaxyproject.org//topics/statistics/tutorials/image_learner/tutorial.html |
|
|
2026-01-28 |
2026-05-18 |
4 |
True |
True |
True |
True |
image_learner |
UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
671027 |
1063836 |
7.183333 |
0 |
|
Statistics and machine learning |
Image classification in Galaxy with fruit 360 dataset |
https://training.galaxyproject.org//topics/statistics/tutorials/fruit_360/tutorial.html |
|
|
2021-12-01 |
2024-07-09 |
8 |
True |
True |
True |
True |
sklearn_to_categorical, tp_cut_tool, ml_visualization_ex, keras_train_and_eval, model_prediction, keras_model_builder, keras_model_config |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.fr |
0 |
|
3462931 |
7651759 |
5.283333 |
0 |
|
Statistics and machine learning |
Age prediction using machine learning |
https://training.galaxyproject.org//topics/statistics/tutorials/age-prediction-with-ml/tutorial.html |
|
|
2019-01-25 |
2025-04-08 |
12 |
True |
False |
False |
True |
plotly_parallel_coordinates_plot, sklearn_searchcv, sklearn_build_pipeline, sklearn_ensemble, plotly_regression_performance_plots |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
13554 |
21738 |
2.133333 |
0 |
|
Statistics and machine learning |
A Docker-based interactive Jupyterlab powered by GPU for artificial intelligence in Galaxy |
https://training.galaxyproject.org//topics/statistics/tutorials/gpu_jupyter_lab/tutorial.html |
|
|
2022-04-06 |
2025-04-08 |
9 |
True |
False |
False |
True |
Filter1, Cut1, interactive_tool_ml_jupyter_notebook |
UseGalaxy.eu |
|
0 |
|
1345 |
1673 |
8.600000 |
0 |
|
Statistics and machine learning |
Modeling Breast Cancer Subtypes with Flexynesis |
https://training.galaxyproject.org//topics/statistics/tutorials/flexynesis_classification/tutorial.html |
|
|
2025-08-13 |
2026-05-18 |
7 |
True |
False |
True |
True |
tp_cut_tool, tabpfn, table_compute, __EXTRACT_DATASET__, datamash_transpose, join1, flexynesis_plot, Show beginning1, flexynesis, tp_easyjoin_tool, tp_sort_header_tool |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.fr |
0 |
|
276 |
374 |
17.900000 |
0 |
|
Statistics and machine learning |
Basics of machine learning |
https://training.galaxyproject.org//topics/statistics/tutorials/machinelearning/tutorial.html |
|
|
2018-11-05 |
2026-05-12 |
16 |
True |
True |
True |
True |
sklearn_svm_classifier |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.fr, UseGalaxy.no |
0 |
|
3947174 |
9284720 |
12.966667 |
0 |
|
Statistics and machine learning |
Gleam Multimodal Learner - Head and Neck cancer Recurrence Prediction with HANCOCK |
https://training.galaxyproject.org//topics/statistics/tutorials/multimodal_learner/tutorial.html |
|
|
2026-03-25 |
2026-05-18 |
4 |
True |
True |
True |
True |
multimodal_learner |
UseGalaxy.org (Main) |
UseGalaxy.eu |
0 |
|
374273 |
641876 |
13.283333 |
0 |
|
Statistics and machine learning |
Interval-Wise Testing for omics data |
https://training.galaxyproject.org//topics/statistics/tutorials/iwtomics/tutorial.html |
|
Differential gene expression analysis, Differentially-methylated region identification, Peak calling, Comparison, Genome annotation |
2018-06-14 |
2023-11-09 |
17 |
True |
False |
False |
True |
iwtomics_testandplot, iwtomics_loadandplot, iwtomics_plotwithscale |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
|
0 |
|
423 |
546 |
15.216667 |
0 |
|
Statistics and machine learning |
Regression in Machine Learning |
https://training.galaxyproject.org//topics/statistics/tutorials/regression_machinelearning/tutorial.html |
|
|
2020-01-25 |
2026-05-12 |
20 |
True |
True |
True |
True |
sklearn_searchcv, Remove beginning1, sklearn_build_pipeline, sklearn_ensemble, plotly_regression_performance_plots, sklearn_generalized_linear |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
3947508 |
9284846 |
7.783333 |
0 |
|
Statistics and machine learning |
Galaxy Tabular Learner - Building a Model using Chowell clinical data |
https://training.galaxyproject.org//topics/statistics/tutorials/loris_model/tutorial.html |
|
|
2024-12-13 |
2026-05-15 |
4 |
True |
True |
True |
True |
PyCaret_Model_Comparison, tabular_learner |
|
|
0 |
|
1705294 |
3084918 |
12.400000 |
0 |
|
Statistics and machine learning |
Deep Learning (Part 3) - Convolutional neural networks (CNN) |
https://training.galaxyproject.org//topics/statistics/tutorials/CNN/tutorial.html |
|
|
2021-04-19 |
2026-05-11 |
20 |
True |
True |
True |
True |
sklearn_to_categorical, ml_visualization_ex, keras_train_and_eval, model_prediction, keras_model_builder, keras_model_config |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.fr |
0 |
|
3802758 |
8749424 |
3.983333 |
0 |
|
Statistics and machine learning |
Deep Learning (Part 2) - Recurrent neural networks (RNN) |
https://training.galaxyproject.org//topics/statistics/tutorials/RNN/tutorial.html |
|
|
2021-02-23 |
2025-05-10 |
15 |
True |
True |
True |
True |
ml_visualization_ex, keras_train_and_eval, model_prediction, keras_model_builder, keras_model_config |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.fr, UseGalaxy.no |
0 |
|
3877392 |
9030380 |
5.316667 |
0 |
|
Statistics and machine learning |
Prepare Data from CbioPortal for Flexynesis Integration |
https://training.galaxyproject.org//topics/statistics/tutorials/flexynesis_cbio_import/tutorial.html |
|
|
2025-08-10 |
2025-08-13 |
2 |
True |
False |
False |
True |
flexynesis_cbioportal_import, tp_cut_tool, table_compute, __EXTRACT_DATASET__, flexynesis_utils, tp_sort_header_tool |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.org (Main) |
0 |
|
131 |
138 |
8.166667 |
0 |
|
Statistics and machine learning |
Unsupervised Analysis of Bone Marrow Cells with Flexynesis |
https://training.galaxyproject.org//topics/statistics/tutorials/flexynesis_unsupervised/tutorial.html |
|
|
2025-08-10 |
2025-08-13 |
2 |
True |
False |
False |
True |
flexynesis, flexynesis_plot, flexynesis_utils, __EXTRACT_DATASET__ |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.org (Main) |
0 |
|
97 |
107 |
15.616667 |
0 |
|
Statistics and machine learning |
Classification in Machine Learning |
https://training.galaxyproject.org//topics/statistics/tutorials/classification_machinelearning/tutorial.html |
|
|
2020-04-30 |
2025-05-14 |
18 |
True |
True |
True |
True |
sklearn_svm_classifier, sklearn_searchcv, Remove beginning1, sklearn_nn_classifier, sklearn_build_pipeline, sklearn_ensemble, plotly_ml_performance_plots, sklearn_generalized_linear |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
3947038 |
9284799 |
10.750000 |
0 |
|
Statistics and machine learning |
Text-mining with the SimText toolset |
https://training.galaxyproject.org//topics/statistics/tutorials/text-mining_simtext/tutorial.html |
|
|
2021-04-05 |
2025-05-07 |
8 |
True |
False |
False |
True |
pubmed_by_queries, pmids_to_pubtator_matrix, interactive_tool_simtext_app |
UseGalaxy.eu |
|
0 |
|
574 |
771 |
10.800000 |
0 |
|
Statistics and machine learning |
Deep Learning (Part 1) - Feedforward neural networks (FNN) |
https://training.galaxyproject.org//topics/statistics/tutorials/FNN/tutorial.html |
|
|
2021-04-28 |
2026-05-11 |
13 |
True |
True |
True |
True |
keras_train_and_eval, keras_model_builder, model_prediction, plotly_regression_performance_plots, keras_model_config |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.fr, UseGalaxy.no |
0 |
|
3807444 |
8738663 |
3.400000 |
0 |
|
Statistics and machine learning |
PAPAA PI3K_OG: PanCancer Aberrant Pathway Activity Analysis |
https://training.galaxyproject.org//topics/statistics/tutorials/aberrant_pi3k_pathway_analysis/tutorial.html |
|
|
2021-05-06 |
2023-11-09 |
7 |
True |
False |
False |
True |
pancancer_external_sample_status_prediction, pancancer_apply_weights, pancancer_alternative_genes_pathwaymapper, pancancer_classifier, pancancer_targene_pharmacology, pancancer_compare_within_models, pancancer_targene_summary_figures, pancancer_visualize_decisions, pancancer_map_mutation_class, pancancer_within_disease_analysis, pancancer_pathway_count_heatmaps, pancancer_targene_cell_line_predictions |
|
|
0 |
|
905 |
1355 |
10.900000 |
0 |
|
Statistics and machine learning |
Identifing Survival Markers of Brain tumor with Flexynesis |
https://training.galaxyproject.org//topics/statistics/tutorials/flexynesis_survival/tutorial.html |
|
|
2025-08-13 |
2025-08-13 |
2 |
True |
False |
False |
True |
tp_replace_in_column, __EXTRACT_DATASET__, Add_a_column1, flexynesis_plot, datamash_ops, flexynesis |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.org (Main) |
0 |
|
158 |
187 |
9.316667 |
0 |
|
Statistics and machine learning |
Train and Test a Deep learning image classifier with Galaxy-Ludwig |
https://training.galaxyproject.org//topics/statistics/tutorials/galaxy-ludwig/tutorial.html |
|
|
2024-10-28 |
2024-12-11 |
2 |
True |
False |
False |
True |
ludwig_experiment |
|
|
0 |
|
304 |
369 |
6.966667 |
0 |
|
Statistics and machine learning |
Introduction to deep learning |
https://training.galaxyproject.org//topics/statistics/tutorials/intro_deep_learning/tutorial.html |
|
|
2020-03-26 |
2025-04-08 |
9 |
True |
False |
False |
True |
ml_visualization_ex, keras_train_and_eval, model_prediction, keras_model_builder, keras_model_config |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.fr |
0 |
|
2650 |
3351 |
7.183333 |
0 |
|
Statistics and machine learning |
Fine tune large protein model (ProtTrans) using HuggingFace |
https://training.galaxyproject.org//topics/statistics/tutorials/fine_tuning_protTrans/tutorial.html |
|
|
2024-06-17 |
2025-04-08 |
4 |
True |
True |
True |
False |
interactive_tool_ml_jupyter_notebook |
UseGalaxy.eu |
|
0 |
|
1977908 |
3767582 |
6.450000 |
0 |
|
Statistics and machine learning |
Introduction to Machine Learning using R |
https://training.galaxyproject.org//topics/statistics/tutorials/intro-to-ml-with-r/tutorial.html |
|
|
2021-05-21 |
2024-10-15 |
15 |
True |
False |
True |
False |
interactive_tool_rstudio |
UseGalaxy.eu |
|
0 |
|
4777 |
7298 |
4.833333 |
0 |
|
Statistics and machine learning |
Supervised Learning with Hyperdimensional Computing |
https://training.galaxyproject.org//topics/statistics/tutorials/hyperdimensional_computing/tutorial.html |
|
|
2023-04-28 |
2023-11-09 |
2 |
True |
False |
False |
False |
chopin2 |
UseGalaxy.org (Main) |
UseGalaxy.eu |
0 |
|
542 |
649 |
5.700000 |
0 |
|
Synthetic Biology |
Evaluating and ranking a set of pathways based on multiple metrics |
https://training.galaxyproject.org//topics/synthetic-biology/tutorials/pathway_analysis/tutorial.html |
|
|
2022-09-26 |
2024-06-14 |
7 |
True |
False |
True |
True |
rpranker, rpscore, rpfba, rpthermo |
UseGalaxy.be |
|
0 |
|
739 |
1054 |
9.600000 |
0 |
|
Synthetic Biology |
Designing plasmids encoding predicted pathways by using the BASIC assembly method |
https://training.galaxyproject.org//topics/synthetic-biology/tutorials/basic_assembly_analysis/tutorial.html |
|
|
2022-05-12 |
2024-06-14 |
8 |
True |
False |
True |
True |
rpbasicdesign, selenzy-wrapper, dnabot |
UseGalaxy.be |
UseGalaxy.fr |
0 |
|
1168 |
1754 |
10.300000 |
0 |
|
Synthetic Biology |
Generating theoretical possible pathways for the production of Lycopene in E.Coli using Retrosynthesis tools |
https://training.galaxyproject.org//topics/synthetic-biology/tutorials/retrosynthesis_analysis/tutorial.html |
|
|
2022-06-23 |
2024-06-14 |
8 |
True |
False |
True |
True |
rp2paths, rpcompletion, get_sbml_model, rrparser, retropath2, rpextractsink |
UseGalaxy.be |
UseGalaxy.fr |
0 |
|
715 |
995 |
10.200000 |
0 |
|
Teaching and Hosting Galaxy training |
Overview of the Galaxy Training Material for Instructors |
https://training.galaxyproject.org//topics/teaching/tutorials/gtn-for-instructors/slides.html |
|
|
2022-09-23 |
2024-08-08 |
3 |
False |
True |
True |
False |
|
|
|
0 |
|
2999317 |
6221088 |
1.866667 |
0 |
|
Teaching and Hosting Galaxy training |
Workshop Kickoff |
https://training.galaxyproject.org//topics/teaching/tutorials/workshop-intro/slides.html |
|
|
2019-06-04 |
2024-02-20 |
5 |
False |
True |
False |
False |
|
|
|
0 |
|
3943961 |
9280372 |
2.083333 |
0 |
|
Teaching and Hosting Galaxy training |
Set up a Galaxy for Training |
https://training.galaxyproject.org//topics/teaching/tutorials/setup-galaxy-for-training/tutorial.html |
|
|
2018-06-04 |
2023-11-09 |
5 |
True |
False |
False |
False |
|
|
|
0 |
|
440 |
491 |
9.800000 |
0 |
|
Teaching and Hosting Galaxy training |
Organizing a workshop |
https://training.galaxyproject.org//topics/teaching/tutorials/organize-workshop/tutorial.html |
|
|
2018-11-15 |
2023-11-09 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
361 |
390 |
14.916667 |
0 |
|
Teaching and Hosting Galaxy training |
Running a workshop as an instructor |
https://training.galaxyproject.org//topics/teaching/tutorials/running-workshop/tutorial.html |
|
|
2018-11-15 |
2025-12-18 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
260 |
392 |
17.266667 |
0 |
|
Teaching and Hosting Galaxy training |
Course Builder |
https://training.galaxyproject.org//topics/teaching/tutorials/gallantries-coursebuilder/tutorial.html |
|
|
2023-11-02 |
2023-11-02 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
201 |
228 |
16.500000 |
0 |
|
Teaching and Hosting Galaxy training |
Training Infrastructure as a Service |
https://training.galaxyproject.org//topics/teaching/tutorials/setup-tiaas-for-training/tutorial.html |
|
|
2018-11-15 |
2023-12-20 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
326 |
526 |
19.600000 |
0 |
|
Teaching and Hosting Galaxy training |
Live Coding is a Skill |
https://training.galaxyproject.org//topics/teaching/tutorials/live-coding/tutorial.html |
|
|
2022-09-23 |
2023-11-09 |
6 |
True |
False |
False |
False |
|
|
|
0 |
|
128 |
132 |
4.800000 |
0 |
|
Teaching and Hosting Galaxy training |
Hybrid training |
https://training.galaxyproject.org//topics/teaching/tutorials/hybrid-training/tutorial.html |
|
|
2022-09-23 |
2024-06-25 |
7 |
True |
False |
False |
False |
|
|
|
0 |
|
46 |
48 |
3.233333 |
0 |
|
Teaching and Hosting Galaxy training |
Asynchronous training |
https://training.galaxyproject.org//topics/teaching/tutorials/gallantries-async/tutorial.html |
|
|
2023-11-02 |
2023-11-02 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
34 |
34 |
15.933333 |
0 |
|
Teaching and Hosting Galaxy training |
Galaxy Admin Training |
https://training.galaxyproject.org//topics/teaching/tutorials/galaxy-admin-training/tutorial.html |
|
|
2020-11-04 |
2024-09-17 |
5 |
True |
False |
False |
False |
|
|
|
0 |
|
202 |
224 |
16.983333 |
0 |
|
Teaching and Hosting Galaxy training |
Teaching online |
https://training.galaxyproject.org//topics/teaching/tutorials/teaching-online/tutorial.html |
|
|
2022-09-23 |
2023-10-23 |
4 |
True |
False |
False |
False |
|
|
|
0 |
|
48 |
48 |
22.233333 |
0 |
|
Teaching and Hosting Galaxy training |
Teaching experiences |
https://training.galaxyproject.org//topics/teaching/tutorials/experiences/tutorial.html |
|
|
2022-09-23 |
2022-09-23 |
1 |
True |
False |
False |
False |
|
|
|
0 |
|
373 |
610 |
18.933333 |
0 |
|
Transcriptomics |
Genome-wide alternative splicing analysis |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/differential-isoform-expression/tutorial.html |
|
Sequence composition calculation, Transcriptome assembly, Sequence annotation, Sequence assembly validation, De-novo assembly, Validation, Sequencing quality control, RNA-Seq analysis, Sequence comparison, Sequence alignment, Sequence analysis, Protein sequence analysis, Statistical calculation, Data handling, Visualisation, Formatting, Sequence contamination filtering |
2023-05-17 |
2026-04-13 |
13 |
True |
True |
False |
True |
tp_cat, stringtie_merge, Remove beginning1, gene2exon1, cpat, cat1, gffcompare, __FILTER_FROM_FILE__, stringtie, collection_element_identifiers, pfamscan, sort1, Add_a_column1, fastp, gffread, tp_uniq_tool, rseqc_geneBody_coverage, regex1, gtftobed12, rseqc_read_distribution, rseqc_inner_distance, Cut1, tp_grep_tool, pygenomeTracks, rseqc_infer_experiment, rseqc_junction_saturation, multiqc, rna_quast, addValue, __FLATTEN__, tp_awk_tool, fastqc, rna_star, Filter1, isoformswitchanalyzer, rseqc_junction_annotation |
|
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
2588792 |
5188325 |
7.116667 |
0 |
|
Transcriptomics |
RNA-Seq data analysis, clustering and visualisation tutorial |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-analysis-clustering-viz/tutorial.html |
|
RNA-Seq analysis, Differential gene expression analysis, Gene functional annotation |
2025-05-28 |
2026-06-08 |
9 |
True |
False |
False |
True |
length_and_gc_content, goseq, Show beginning1, volcanoplot, table_compute, Multivariate, deseq2, Cut1, Add_a_column1, ggplot2_heatmap2, cat1, Filter1, Grouping1, tp_easyjoin_tool, tp_sort_header_tool, deg_annotate |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr |
UseGalaxy.cz, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
3037 |
3579 |
3.333333 |
0 |
|
Transcriptomics |
De novo transcriptome assembly, annotation, and differential expression analysis |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/full-de-novo/tutorial.html |
|
Sequence composition calculation, Transcriptome assembly, De-novo assembly, Coding region prediction, de Novo sequencing, Sequencing quality control, Statistical calculation, Gene functional annotation, Validation |
2020-02-13 |
2023-11-09 |
8 |
True |
False |
False |
True |
trinotate, describe_samples, multiqc, trinity_filter_low_expr_transcripts, trinity_samples_qccheck, transdecoder, trinity_contig_exn50_statistic, trimmomatic, trinity_abundance_estimates_to_matrix, trinity_analyze_diff_expr, fastqc, trinity_align_and_estimate_abundance, trinity_run_de_analysis, trinity_define_clusters_by_cutting_tree, trinity |
UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.no |
0 |
|
15723 |
27798 |
4.150000 |
0 |
|
Transcriptomics |
2: RNA-seq counts to genes |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-counts-to-genes/tutorial.html |
|
RNA-Seq analysis, Annotation |
2018-12-31 |
2024-04-10 |
21 |
True |
False |
False |
True |
tp_cut_tool, mergeCols1, annotatemyids, limma_voom, tp_replace_in_line |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
51176 |
82729 |
5.700000 |
0 |
|
Transcriptomics |
Differential abundance testing of small RNAs |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/srna/tutorial.html |
|
Sequence composition calculation, Differential gene expression analysis, Primer removal, Sequence trimming, Read pre-processing, Sequencing quality control, RNA-Seq analysis, RNA-Seq quantification, Statistical calculation, Sequence alignment, Gene expression analysis |
2017-06-29 |
2023-11-09 |
26 |
True |
False |
False |
True |
salmon, deseq2, fastq_manipulation, hisat2, trim_galore, fastqc, Filter1, bedtools_bamtofastq, samtool_filter2 |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
7423 |
12739 |
5.050000 |
0 |
|
Transcriptomics |
RNA-RNA interactome data analysis |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-interactome/tutorial.html |
|
Sequence composition calculation, Primer removal, Statistical calculation, Sequence trimming, Sequencing quality control, Read pre-processing |
2020-03-23 |
2023-11-09 |
12 |
True |
False |
False |
True |
query_tabular, chira_map, chira_collapse, cutadapt, chira_quantify, fastqc, chira_merge, chira_extract |
UseGalaxy.be, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu |
0 |
|
1616 |
2378 |
11.116667 |
0 |
|
Transcriptomics |
Visualization of RNA-Seq results with heatmap2 |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-viz-with-heatmap2/tutorial.html |
|
|
2018-12-31 |
2026-04-13 |
15 |
True |
False |
False |
True |
Show beginning1, Cut1, Show tail1, datamash_transpose, join1, cat1, Filter1, ggplot2_heatmap2, tp_sort_header_tool |
GalaxyTrakr, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
80382 |
130914 |
2.633333 |
0 |
|
Transcriptomics |
3: RNA-seq genes to pathways |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-genes-to-pathways/tutorial.html |
|
Gene-set enrichment analysis, Gene functional annotation, Gene set testing |
2018-12-31 |
2023-11-09 |
13 |
True |
False |
False |
True |
tp_cut_tool, egsea, Cut1, Add_a_column1, join1, fgsea, tp_sort_header_tool, goseq |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
29365 |
45746 |
5.733333 |
0 |
|
Transcriptomics |
Small Non-coding RNA Clustering using BlockClust |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/small_ncrna_clustering/tutorial.html |
|
|
2018-12-14 |
2023-11-09 |
8 |
True |
False |
False |
True |
blockbuster, samtools_sort, tp_sort_header_tool, blockclust |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no |
0 |
|
1133 |
1519 |
13.216667 |
0 |
|
Transcriptomics |
Visualization of RNA-Seq results with Volcano Plot |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-viz-with-volcanoplot/tutorial.html |
|
|
2018-12-31 |
2025-04-17 |
16 |
True |
False |
True |
True |
volcanoplot |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.no |
0 |
|
161831 |
261222 |
2.100000 |
0 |
|
Transcriptomics |
GO Enrichment Analysis |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/goenrichment/tutorial.html |
|
Gene-set enrichment analysis |
2019-01-23 |
2024-03-05 |
12 |
True |
False |
False |
True |
Filter1, goenrichment, goslimmer |
Galaxy@AuBi, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
|
0 |
|
24184 |
38734 |
3.350000 |
0 |
|
Transcriptomics |
CLIP-Seq data analysis from pre-processing to motif detection |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/clipseq/tutorial.html |
|
Sequence composition calculation, Read pre-processing, Primer removal, Statistical calculation, Sequence trimming, Sequence alignment, Sequencing quality control, Mapping |
2018-08-17 |
2023-11-09 |
23 |
True |
False |
False |
True |
Extract genomic DNA 1, cutadapt, umi_tools_dedup, __MERGE_COLLECTION__, meme_chip, wig_to_bigWig, sort1, umi_tools_extract, peakachu, deeptools_multi_bam_summary, deeptools_plot_correlation, bedtools_genomecoveragebed_bedgraph, bctools_extract_alignment_ends, deeptools_plot_fingerprint, bedtools_slopbed, rcas, tp_awk_tool, fastqc, rna_star, __SORTLIST__ |
|
|
0 |
|
8926 |
17053 |
3.400000 |
0 |
|
Transcriptomics |
1: RNA-Seq reads to counts |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-reads-to-counts/tutorial.html |
|
Sequence composition calculation, Primer removal, Read summarisation, Sequence trimming, Validation, Read pre-processing, Sequencing quality control, RNA-Seq quantification, Statistical calculation, Data handling, Formatting, Sequence alignment |
2018-09-23 |
2024-08-09 |
33 |
True |
False |
False |
True |
multiqc, cutadapt, rseqc_read_distribution, collection_column_join, hisat2, rseqc_infer_experiment, picard_MarkDuplicates, fastqc, samtools_idxstats, featurecounts, rseqc_geneBody_coverage |
UseGalaxy.eu |
MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
84177 |
150322 |
5.283333 |
0 |
|
Transcriptomics |
Network analysis with Heinz |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/network-analysis-with-heinz/tutorial.html |
|
RNA-Seq analysis, Pathway or network analysis, Differential gene expression analysis |
2018-10-11 |
2024-01-15 |
16 |
True |
True |
False |
True |
heinz_visualization, heinz, deseq2, Cut1, heinz_scoring, heinz_bum |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
3946142 |
9283704 |
11.783333 |
0 |
|
Transcriptomics |
Visualization of RNA-Seq results with CummeRbund |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-viz-with-cummerbund/tutorial.html |
|
|
2017-10-16 |
2023-11-09 |
16 |
True |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3946671 |
9284387 |
11.233333 |
0 |
|
Transcriptomics |
RNA-Seq analysis with AskOmics Interactive Tool |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-analysis-with-askomics-it/tutorial.html |
|
|
2020-07-09 |
2023-11-09 |
13 |
True |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3945096 |
9281793 |
18.333333 |
0 |
|
Transcriptomics |
Introduction to Transcriptomics |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/introduction/slides.html |
|
|
2016-10-05 |
2025-04-08 |
3 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280375 |
2.083333 |
0 |
|
Transcriptomics |
Reference-based RNAseq data analysis (long) |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rb-rnaseq/tutorial.html |
|
|
2017-02-22 |
2023-02-17 |
12 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
22927 |
35544 |
4.150000 |
0 |
|
Transcriptomics |
RNA-seq Alignment with STAR |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-bash-star-align/tutorial.html |
|
|
2023-05-15 |
2023-11-09 |
6 |
True |
False |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
12274 |
14948 |
3.333333 |
0 |
|
Transcriptomics |
RNA Seq Counts to Viz in R |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-counts-to-viz-in-r/tutorial.html |
|
|
2019-10-08 |
2024-10-15 |
21 |
True |
False |
True |
False |
interactive_tool_rstudio |
UseGalaxy.eu |
|
0 |
|
4504 |
5746 |
10.933333 |
0 |
|
Transcriptomics |
Visualization of RNA-Seq results with Volcano Plot in R |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/rna-seq-viz-with-volcanoplot-r/tutorial.html |
|
|
2021-06-14 |
2024-06-14 |
8 |
True |
False |
True |
False |
interactive_tool_rstudio, volcanoplot |
UseGalaxy.eu |
|
0 |
|
31624 |
43024 |
3.716667 |
0 |
|
Transcriptomics |
Reference-based RNA-Seq data analysis |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/ref-based/tutorial.html |
|
Differential gene expression analysis, Primer removal, Read summarisation, Pathway or network analysis, Sequencing quality control, RNA-Seq quantification, Gene functional annotation, Formatting, Validation, Pathway or network visualisation, Genome visualisation, Exonic splicing enhancer prediction, Read mapping, Sequence alignment, Sequence trimming, Structure visualisation, Pathway visualisation, Enrichment analysis, Read pre-processing, RNA-Seq analysis, Data handling, Visualisation |
2016-10-05 |
2026-04-13 |
110 |
True |
False |
True |
True |
length_and_gc_content, tp_cat, cutadapt, table_compute, deseq2, Remove beginning1, __TAG_FROM_FILE__, cat1, samtools_idxstats, deg_annotate, __MERGE_COLLECTION__, __FILTER_FROM_FILE__, goseq, jbrowse2, pathview, collection_element_identifiers, ChangeCase, __EXTRACT_DATASET__, Add_a_column1, picard_MarkDuplicates, Grouping1, ggplot2_heatmap2, rseqc_geneBody_coverage, tp_sort_header_tool, gtftobed12, rseqc_read_distribution, Cut1, tp_grep_tool, pygenomeTracks, rseqc_infer_experiment, tp_replace_in_line, multiqc, dexseq, samtools_view, dexseq_count, falco, __FLATTEN__, join1, rna_star, Filter1, featurecounts |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
212287 |
385015 |
4.400000 |
0 |
|
Transcriptomics |
Pathway analysis with the MINERVA Platform |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/minerva-pathways/tutorial.html |
|
Sequence composition calculation, Primer removal, Read summarisation, Sequence trimming, Sequencing quality control, Read pre-processing, RNA-Seq analysis, RNA-Seq quantification, Annotation, Statistical calculation, Data handling, Gene functional annotation, Validation, Sequence alignment |
2024-03-28 |
2024-07-26 |
3 |
True |
False |
False |
True |
fasterq_dump, cutadapt, collection_column_join, limma_voom, goseq, Grep1, __EXTRACT_DATASET__, Add_a_column1, rseqc_geneBody_coverage, tp_sort_header_tool, rseqc_read_distribution, tp_sorted_uniq, Cut1, tp_replace_in_line, multiqc, annotatemyids, hisat2, join1, fastqc, featurecounts |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
801 |
933 |
13.700000 |
0 |
|
Transcriptomics |
De novo transcriptome reconstruction with RNA-Seq |
https://training.galaxyproject.org//topics/transcriptomics/tutorials/de-novo/tutorial.html |
|
Sequence composition calculation, Transcriptome assembly, Differential gene expression analysis, Sequence annotation, Read summarisation, Sequencing quality control, RNA-Seq analysis, RNA-Seq quantification, Statistical calculation, Sequence alignment |
2017-02-19 |
2024-06-14 |
36 |
True |
False |
True |
True |
deeptools_bam_coverage, stringtie_merge, deseq2, hisat2, trimmomatic, fastqc, Filter1, gffcompare, featurecounts, stringtie |
Galaxy@AuBi, UseGalaxy.be, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
17858 |
30160 |
6.733333 |
0 |
|
Variant Analysis |
Introduction to Variant analysis |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/introduction/slides.html |
|
|
2016-08-19 |
2023-03-05 |
2 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280375 |
2.083333 |
0 |
|
Variant Analysis |
Calling very rare variants |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/dunovo/tutorial.html |
|
Sequence composition calculation, Generation, Genome indexing, Variant calling, Sequencing quality control, Statistical calculation, Sequence alignment, Read mapping |
2017-02-22 |
2024-12-09 |
21 |
True |
False |
False |
True |
bwa_mem, bamleftalign, correct_barcodes, make_families, dunovo, naive_variant_caller, align_families, fastqc, Filter1, allele_counts_1, sequence_content_trimmer |
UseGalaxy.be, UseGalaxy.org (Main) |
|
0 |
|
2524 |
3683 |
5.233333 |
0 |
|
Variant Analysis |
Calling variants in non-diploid systems |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/non-dip/tutorial.html |
Genomics, Sequence assembly, DNA polymorphism, Microbiology, Sequence analysis, Genetic variation |
Sequence alignment analysis, Sequence composition calculation, Generation, Genome indexing, Variant calling, Sequencing quality control, Statistical calculation, Sequence alignment, Data handling, Formatting, Read mapping |
2017-02-16 |
2024-03-15 |
23 |
True |
False |
False |
True |
picard_MergeSamFiles, bwa_mem, bamFilter, freebayes, Cut1, vcf2tsv, picard_MarkDuplicates, fastqc, bamleftalign, vcffilter2 |
UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no |
0 |
|
10096 |
17232 |
5.700000 |
0 |
|
Variant Analysis |
Calling variants in diploid systems |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/dip/tutorial.html |
|
Statistical calculation, Sequence analysis, Variant calling, Genetic variation analysis |
2017-02-20 |
2025-04-28 |
17 |
True |
False |
False |
True |
vcfallelicprimitives, freebayes, snpEff, gemini_query, gemini_load, gemini_db_info |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.no |
0 |
|
17279 |
29107 |
8.783333 |
0 |
|
Variant Analysis |
Somatic Variant Discovery from WES Data Using Control-FREEC |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/somatic-variant-discovery/tutorial.html |
|
Sequence visualisation, Copy number estimation, Sequence composition calculation, Generation, Genome indexing, Variant calling, Sequencing quality control, Statistical calculation, Read mapping, Genome alignment, Visualisation, Validation, Sequence alignment |
2022-10-05 |
2025-03-20 |
14 |
True |
False |
False |
True |
bwa_mem, multiqc, samtools_view, falco, circos, Grep1, control_freec, __EXTRACT_DATASET__, trimmomatic, fastqc, samtools_calmd, tp_text_file_with_recurring_lines, bamleftalign, __RELABEL_FROM_FILE__, tp_replace_in_line, samtools_rmdup, __BUILD_LIST__ |
|
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
0 |
|
2145 |
2711 |
8.216667 |
0 |
|
Variant Analysis |
Exome sequencing data analysis for diagnosing a genetic disease |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/exome-seq/tutorial.html |
|
Sequence composition calculation, Generation, Genome indexing, Variant calling, Sequencing quality control, Sequence analysis, Genetic variation analysis, Read mapping, Statistical calculation, Visualisation, Validation, Sequence alignment |
2016-08-19 |
2026-03-09 |
30 |
True |
False |
True |
True |
bwa_mem, multiqc, samtools_view, freebayes, bcftools_norm, gemini_load, trimmomatic, snpEff, fastqc, snpEff_download, falco, samtools_rmdup, gemini_inheritance |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.fr |
0 |
|
40563 |
71560 |
5.233333 |
0 |
|
Variant Analysis |
Deciphering Virus Populations - Single Nucleotide Variants (SNVs) and Specificities in Baculovirus Isolates |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/baculovirus-isolate-variation/tutorial.html |
|
Generation, Primer removal, Genome indexing, Sequence trimming, Read pre-processing, Data handling, Visualisation, Sequence alignment, Read mapping |
2025-02-24 |
2025-02-24 |
1 |
True |
False |
False |
True |
bwa_mem, ggplot2_point, collapse_dataset, bcftools_call, tp_replace_in_column, fastq_dump, vcf2tsv, ncbi_acc_download, trim_galore, tp_awk_tool, Filter1, bcftools_mpileup, tp_replace_in_line |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
533 |
647 |
5.366667 |
0 |
|
Variant Analysis |
Trio Analysis using Synthetic Datasets from RD-Connect GPAP |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/trio-analysis/tutorial.html |
|
Sequence analysis, Genetic variation analysis |
2022-05-19 |
2024-09-17 |
13 |
True |
False |
True |
True |
CONVERTER_gz_to_uncompressed, regexColumn1, bcftools_merge, CONVERTER_uncompressed_to_gz, bcftools_norm, pyega3, tp_grep_tool, snpEff, Filter1, gene_iobio_display_generation_iframe, gemini_load, gemini_inheritance |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz |
0 |
|
2243 |
3807 |
9.633333 |
0 |
|
Variant Analysis |
Mapping and molecular identification of phenotype-causing mutations |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/mapping-by-sequencing/tutorial.html |
|
|
2018-03-07 |
2023-11-09 |
16 |
True |
False |
False |
True |
tp_find_and_replace, mimodd_varextract, mimodd_varcall, mimodd_varreport, snpEff, snpEff_download, mimodd_map, mimodd_vcf_filter |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
4812 |
6906 |
10.333333 |
0 |
|
Variant Analysis |
Identification of somatic and germline variants from tumor and normal sample pairs |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/somatic-variants/tutorial.html |
|
Sequence alignment analysis, Sequence composition calculation, Generation, Genome indexing, Variant calling, Sequencing quality control, Read mapping, Statistical calculation, Data handling, Visualisation, Validation, Sequence alignment |
2019-03-13 |
2025-03-20 |
16 |
True |
False |
False |
True |
bwa_mem, multiqc, varscan_somatic, bamFilter, falco, trimmomatic, gemini_load, snpEff, fastqc, bg_column_arrange_by_header, samtools_calmd, gemini_annotate, bamleftalign, tp_easyjoin_tool, gemini_query, samtools_rmdup |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
16059 |
28182 |
5.666667 |
0 |
|
Variant Analysis |
Querying the University of Bradford GDC Beacon Database for Copy Number Variants (CNVs) |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/beacon_cnv_query/tutorial.html |
|
Database search, Genetic variation analysis, Service discovery |
2024-08-06 |
2024-09-27 |
3 |
True |
False |
False |
False |
beacon2_cnv |
|
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.fr |
0 |
|
278 |
318 |
9.816667 |
0 |
|
Variant Analysis |
Working with Beacon V2: A Comprehensive Guide to Creating, Uploading, and Searching for Variants with Beacons |
https://training.galaxyproject.org//topics/variant-analysis/tutorials/beaconise_1000hg/tutorial.html |
|
Database search, Genetic variation analysis, Service discovery |
2024-08-06 |
2026-01-12 |
4 |
True |
False |
False |
False |
cnv_phenopacket, cnv_vcf2json, beacon2_import, beacon2_cnv |
|
UseGalaxy.eu |
0 |
|
458 |
503 |
4.583333 |
0 |
|
Visualisation |
Visualisation with Circos |
https://training.galaxyproject.org//topics/visualisation/tutorials/circos/tutorial.html |
|
Sequence visualisation |
2020-01-10 |
2024-10-15 |
22 |
True |
True |
True |
True |
circos, Grep1, Cut1, Remove beginning1, upload1, random_lines1 |
Galaxy@AuBi, Galaxy@Pasteur, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
GalaxyTrakr, UseGalaxy.no |
0 |
|
3975783 |
9330534 |
4.733333 |
0 |
|
Visualisation |
Ploting a Microbial Genome with Circos |
https://training.galaxyproject.org//topics/visualisation/tutorials/circos-microbial/tutorial.html |
|
Sequence visualisation |
2023-11-08 |
2024-09-17 |
3 |
True |
False |
False |
True |
circos_gc_skew, circos_wiggle_to_scatter, deeptools_bam_coverage, circos_interval_to_text, circos, Cut1, circos_interval_to_tile, gff2bed1 |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr |
Galaxy@AuBi, MISSISSIPPI, UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
1885 |
2337 |
8.033333 |
0 |
|
Visualisation |
Friends Don't Let Friends Make Bad Graphs |
https://training.galaxyproject.org//topics/visualisation/tutorials/bad-graphs/slides.html |
|
|
2023-11-20 |
2023-11-20 |
2 |
False |
True |
True |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
2296448 |
4562075 |
1.733333 |
0 |
|
Visualisation |
Visualisations in Galaxy |
https://training.galaxyproject.org//topics/visualisation/tutorials/introduction/slides.html |
|
|
2020-01-10 |
2023-01-12 |
1 |
False |
True |
False |
False |
|
|
UseGalaxy.eu, UseGalaxy.org, UseGalaxy.org.au, UseGalaxy.fr, UseGalaxy.ca |
0 |
|
3943961 |
9280377 |
2.083333 |
0 |