|
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 |
2025-06-04 |
4 |
True |
False |
True |
True |
mitohifi, compress_file |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.org (Main) |
|
0 |
|
1107 |
1319 |
11.033333 |
0 |
|
Assembly |
Large genome assembly and polishing |
https://training.galaxyproject.org//topics/assembly/tutorials/largegenome/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Genome assembly, Visualisation, Sequence contamination filtering, Statistical calculation, Variant calling, Box-Whisker plot plotting, Sequence assembly, Mapping assembly, Sequence assembly visualisation, De-novo assembly, Sequence composition calculation, Sequencing quality control, Validation, Sequence assembly validation, Cross-assembly, Pairwise sequence alignment, Scatter plot plotting, Base-calling |
2023-03-06 |
2026-01-23 |
15 |
True |
False |
True |
True |
multiqc, bandage_image, racon, fastqc, genomescope, medaka_consensus_pipeline, nanoplot, fasta-stats, fastp, meryl, minimap2, quast, busco, barchart_gnuplot, flye |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz |
0 |
|
8137 |
10482 |
5.233333 |
0 |
|
Assembly |
Unicycler Assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/unicycler-assembly/tutorial.html |
Sequence assembly, Genomics, Microbiology |
Gene prediction, Genome annotation, Aggregation, Genome assembly, Sequence composition calculation, Sequencing quality control, Validation, Visualisation, Statistical calculation, Sequence assembly validation, Coding region prediction |
2017-10-11 |
2026-01-23 |
25 |
True |
True |
False |
True |
multiqc, fastqc, prokka, quast, unicycler |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no |
0 |
|
3594287 |
8664791 |
7.133333 |
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 |
2025-09-09 |
26 |
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 |
|
3969 |
5433 |
7.450000 |
0 |
|
Assembly |
Chloroplast genome assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/chloroplast-assembly/tutorial.html |
|
Gene prediction, Genome annotation, Mapping assembly, Read alignment, Read mapping, Sequence assembly visualisation, Generation, Genome assembly, Analysis, Genome visualisation, Genome indexing, De-novo assembly, Sequence assembly, Cross-assembly, Sequence alignment, Box-Whisker plot plotting, Coding region prediction, Scatter plot plotting |
2020-12-04 |
2026-01-23 |
22 |
True |
False |
True |
True |
bandage_image, prokka, pilon, nanoplot, fasta-stats, bwa_mem, upload1, jbrowse, bandage_info, flye |
UseGalaxy.eu |
UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
8452 |
13034 |
7.916667 |
0 |
|
Assembly |
Genome assembly using PacBio data |
https://training.galaxyproject.org//topics/assembly/tutorials/hifi-assembly/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Mapping assembly, Genome assembly, De-novo assembly, Visualisation, Sequence assembly validation, Cross-assembly |
2021-11-29 |
2025-06-04 |
2 |
True |
False |
False |
True |
hifiasm, fasta-stats, quast, busco, gfa_to_fa, flye |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.cz, UseGalaxy.no |
0 |
|
1236 |
1483 |
6.466667 |
0 |
|
Assembly |
Genome Assembly Quality Control |
https://training.galaxyproject.org//topics/assembly/tutorials/assembly-quality-control/tutorial.html |
Biodiversity, Sequence assembly, Data quality management |
Phasing, Genome assembly, Scaffolding, De-novo assembly, Visualisation, Sequence assembly validation, k-mer counting |
2022-08-26 |
2025-06-04 |
6 |
True |
True |
False |
True |
chromeister, quast, merqury, meryl, busco |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.eu, UseGalaxy.fr |
UseGalaxy.cz |
0 |
|
2680807 |
5689105 |
10.383333 |
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 |
Mapping, Phasing, Genome assembly, Scaffolding, De-novo assembly, Visualisation, Read pre-processing, Sequence assembly validation, k-mer counting, Sequence alignment, Primer removal, Pairwise sequence alignment, Sequence trimming, Read binning, Data handling |
2021-06-04 |
2026-01-23 |
58 |
True |
False |
True |
True |
pretext_snapshot, tp_find_and_replace, hifiasm, bedtools_bamtobed, gfa_to_fa, purge_dups, yahs, Convert characters1, gfastats, pretext_map, tp_cut_tool, collection_column_join, bellerophon, sort1, bwa_mem2, tp_grep_tool, genomescope, cat1, salsa, quast, merqury, busco, Add_a_column1, meryl, minimap2, cutadapt, bionano_scaffold, collapse_dataset |
|
UseGalaxy.cz |
0 |
|
17204 |
25683 |
3.416667 |
0 |
|
Assembly |
Decontamination of a genome assembly |
https://training.galaxyproject.org//topics/assembly/tutorials/assembly-decontamination/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Taxonomic classification, Data handling |
2024-09-04 |
2025-06-04 |
5 |
True |
False |
True |
True |
tp_sed_tool, parse_mito_blast, Cut1, Filter1, gfastats, kraken2, tp_cat, ncbi_dustmasker_wrapper, ncbi_blastn_wrapper |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
1956 |
2393 |
8.800000 |
0 |
|
Assembly |
ERGA post-assembly QC |
https://training.galaxyproject.org//topics/assembly/tutorials/ERGA-post-assembly-QC/tutorial.html |
Genomics, Sequence assembly, Biodiversity |
Sequence assembly visualisation, Genome assembly, Phasing, Scaffolding, De-novo assembly, Visualisation, Sequence assembly validation, k-mer counting, Sequence alignment, Genotyping, Pairwise sequence alignment, Sequence alignment analysis, Sequence trimming, Data deposition, Data parsing, Data handling |
2023-06-23 |
2025-06-04 |
8 |
True |
False |
True |
True |
bg_diamond, bandage_image, pretext_snapshot, tp_find_and_replace, samtools_stats, blobtoolkit, gfastats, __EXTRACT_DATASET__, pretext_map, interactive_tool_blobtoolkit, bellerophon, genomescope, bwa_mem2, CONVERTER_gz_to_uncompressed, merqury, smudgeplot, busco, meryl, minimap2, collapse_dataset |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.org (Main) |
0 |
|
2257 |
2897 |
8.366667 |
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 |
|
Read mapping, Sequence assembly visualisation, Aggregation, Genome assembly, Sequencing quality control, Validation, Sequence contamination filtering, Sequence file editing, Pairwise sequence alignment, Box-Whisker plot plotting, Scatter plot plotting, Data handling |
2020-04-21 |
2025-05-15 |
14 |
True |
True |
True |
True |
samtools_stats, bandage_image, multiqc, fasterq_dump, collapse_dataset, seqtk_sample, fasta_filter_by_length, nanoplot, samtools_view, fastp, minimap2, bowtie2, unicycler, __ZIP_COLLECTION__, bandage_info, samtools_fastx |
UseGalaxy.org.au, UseGalaxy.eu |
Galaxy@AuBi, MISSISSIPPI, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.fr, UseGalaxy.no, UseGalaxy.org (Main) |
0 |
|
3587409 |
8652768 |
10.666667 |
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 |
argo_getdata, c3s, obis_data, spocc_occ |
UseGalaxy.eu |
UseGalaxy.be |
0 |
|
159 |
197 |
9.666667 |
0 |
|
Ecology |
Metabarcoding/eDNA through Obitools |
https://training.galaxyproject.org//topics/ecology/tutorials/Obitools-metabarcoding/tutorial.html |
|
Statistical calculation, Sequence analysis, Sequence composition calculation, Sequencing quality control |
2022-02-28 |
2025-06-03 |
12 |
True |
False |
True |
True |
obi_illumina_pairend, fastqc, fastq_groomer, obi_tab, unzip, Cut1, obi_ngsfilter, Filter1, obi_clean, join1, seq_filter_by_id, obi_uniq, obi_annotate, obi_grep, obi_stat, wc_gnu, ncbi_blastn_wrapper |
UseGalaxy.org.au, UseGalaxy.eu, UseGalaxy.no |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
4791 |
6629 |
3.733333 |
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 |
2025-06-03 |
2 |
True |
False |
False |
True |
fastp, Count1, cshl_fastq_to_fasta, ncbi_blastn_wrapper |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
Galaxy@AuBi, GalaxyTrakr, MISSISSIPPI, UseGalaxy.no |
0 |
|
643 |
799 |
3.416667 |
0 |
|
Ecology |
Life Traits Ecoregionalization workflow |
https://training.galaxyproject.org//topics/ecology/tutorials/ecoregiolifetraits/tutorial.html |
|
|
2025-06-02 |
2025-06-10 |
3 |
True |
False |
False |
False |
ecoregion_taxa_seeker, column_remove_by_header, regexColumn1, unzip, ecoregion_GeoNearestNeighbor, ecoregion_brt_analysis, WormsMeasurements, Filter1, ClaraGuess, ecoregion_eco_map, tp_cut_tool |
UseGalaxy.eu |
|
0 |
|
66 |
69 |
12.266667 |
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 |
2025-09-03 |
23 |
True |
False |
True |
True |
datamash_transpose, pampa_glmcomm, regexColumn1, Count1, pampa_presabs, pampa_glmsp, Filter1, tp_easyjoin_tool, tp_sort_header_tool, tp_cut_tool, tp_cat, pampa_communitymetrics, mergeCols1, pampa_plotglm, regex1 |
UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.fr |
0 |
|
1152 |
1523 |
10.500000 |
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 |
Summary_Statistics1, Count1, spocc_occ, Filter1, gdal_ogr2ogr |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.no |
|
0 |
|
725 |
888 |
5.416667 |
0 |
|
Ecology |
RAD-Seq Reference-based data analysis |
https://training.galaxyproject.org//topics/ecology/tutorials/ref-based-rad-seq/tutorial.html |
|
Read mapping, Generation, Genome indexing, Sequence composition calculation, Sequencing quality control, Validation, Sequence alignment, Statistical calculation, Data handling |
2017-02-14 |
2025-11-06 |
15 |
True |
False |
False |
True |
bwa, multiqc, fastqc, stacks_procrad, regex_replace, addValue, cat1, Convert characters1, Count1, Summary_Statistics1, Cut1, tp_replace_in_line, Filter1, tp_sort_header_tool, bwa_wrapper, stacks_populations, stacks_refmap, Grep1 |
|
|
0 |
|
3361 |
5160 |
4.666667 |
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 |
2025-06-03 |
6 |
True |
False |
False |
False |
interactive_tool_metashrimps |
UseGalaxy.eu |
|
0 |
|
138 |
149 |
7.350000 |
0 |
|
Ecology |
Champs blocs indicators |
https://training.galaxyproject.org//topics/ecology/tutorials/champs-blocs/tutorial.html |
|
|
2023-01-04 |
2025-12-02 |
12 |
True |
False |
False |
True |
cb_qecb, cb_eco, cb_dissim, cb_ivr, cb_div |
|
|
0 |
|
197 |
347 |
14.933333 |
0 |
|
Ecology |
Marine Omics identifying biosynthetic gene clusters |
https://training.galaxyproject.org//topics/ecology/tutorials/marine_omics_bgc/tutorial.html |
|
Genome annotation, Sequence motif recognition, Protein feature detection |
2024-08-19 |
2025-06-03 |
3 |
True |
False |
False |
True |
SanntiS_marine, sanntis_marine, prodigal, interproscan, regex1 |
|
|
0 |
|
248 |
287 |
11.500000 |
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_diversity_maps, srs_global_indices, srs_spectral_indices |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
675 |
857 |
6.383333 |
0 |
|
Ecology |
Ecoregionalization workflow tutorial |
https://training.galaxyproject.org//topics/ecology/tutorials/Ecoregionalization_tutorial/tutorial.html |
|
|
2024-09-16 |
2025-06-03 |
7 |
True |
False |
False |
True |
ecoregion_taxa_seeker, interactive_tool_jupyter_notebook, regexColumn1, unzip, ecoregion_GeoNearestNeighbor, ecoregion_brt_analysis, ecoregion_eco_map, tp_cut_tool, ecoregion_cluster_estimate, mergeCols1, filter_tabular, ecoregion_clara_cluster |
UseGalaxy.eu |
|
0 |
|
369 |
472 |
7.516667 |
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 |
2025-06-03 |
13 |
True |
False |
False |
True |
stacks_genotypes, stacks_denovomap |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
|
0 |
|
943 |
1305 |
8.366667 |
0 |
|
Ecology |
Species distribution modeling |
https://training.galaxyproject.org//topics/ecology/tutorials/species-distribution-modeling/tutorial.html |
|
|
2019-07-04 |
2025-06-03 |
18 |
True |
False |
False |
True |
tabular_to_csv, tp_find_and_replace, spocc_occ, Filter1, tp_cut_tool, interactive_tool_wallace |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
3359 |
5054 |
3.916667 |
0 |
|
Ecology |
Obis marine indicators |
https://training.galaxyproject.org//topics/ecology/tutorials/obisindicators/tutorial.html |
Biodiversity, Ecology, Data mining |
|
2023-04-11 |
2025-06-03 |
9 |
True |
False |
False |
True |
obis_data, tp_cut_tool, obisindicators |
UseGalaxy.eu |
UseGalaxy.be |
0 |
|
340 |
421 |
11.900000 |
0 |
|
Ecology |
RAD-Seq de-novo data analysis |
https://training.galaxyproject.org//topics/ecology/tutorials/de-novo-rad-seq/tutorial.html |
|
Statistical calculation, Sequence composition calculation, Sequencing quality control, Data handling |
2017-02-14 |
2025-06-03 |
14 |
True |
False |
False |
True |
stacks_denovomap, fastqc, stacks_procrad, stacks_populations |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.no |
0 |
|
2775 |
4386 |
5.150000 |
0 |
|
Ecology |
Preparing genomic data for phylogeny reconstruction |
https://training.galaxyproject.org//topics/ecology/tutorials/phylogeny-data-prep/tutorial.html |
|
Genome annotation, Sequence analysis, Sequence clustering, Genetic variation analysis, Sequence assembly validation, Multiple sequence alignment |
2022-10-21 |
2025-06-03 |
5 |
True |
False |
False |
True |
proteinortho, clustalw, clipkit, tp_replace_in_line, phykit_alignment_based, glimmer_gbk_to_orf, Filter1, repeatmasker_wrapper, proteinortho_grab_proteins, busco, funannotate_predict, regex1, collapse_dataset |
|
|
0 |
|
2389 |
3256 |
6.783333 |
0 |
|
Ecology |
Biodiversity data exploration |
https://training.galaxyproject.org//topics/ecology/tutorials/biodiversity-data-exploration/tutorial.html |
|
|
2022-03-01 |
2025-06-03 |
15 |
True |
False |
True |
True |
ecology_homogeneity_normality, tool_anonymization, regexColumn1, Remove beginning1, ecology_link_between_var, tp_cut_tool, ecology_stat_presence_abs, ecology_presence_abs_abund, ecology_beta_diversity |
UseGalaxy.be, UseGalaxy.eu |
UseGalaxy.cz, UseGalaxy.fr |
0 |
|
1721 |
2377 |
10.416667 |
0 |
|
Ecology |
Regional GAM |
https://training.galaxyproject.org//topics/ecology/tutorials/regionalGAM/tutorial.html |
Ecology |
Visualisation |
2019-07-04 |
2025-06-03 |
18 |
True |
False |
False |
True |
regionalgam_glmmpql, regionalgam_flight_curve, regionalgam_gls, regexColumn1, tp_awk_tool, Count1, Remove beginning1, Filter1, regionalgam_ab_index, ggplot2_point, regionalgam_autocor_acf, regionalgam_plot_trend, csv2tab_R, Paste1, tab2csv_R, mergeCols1, flight-curve |
|
|
0 |
|
369 |
487 |
15.583333 |
0 |
|
Ecology |
QGIS Web Feature Services |
https://training.galaxyproject.org//topics/ecology/tutorials/QGIS_Web_Feature_Services/tutorial.html |
|
|
2023-10-11 |
2025-06-03 |
6 |
True |
False |
False |
False |
interactive_tool_qgis |
UseGalaxy.eu |
|
0 |
|
333 |
380 |
7.500000 |
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 |
0 |
|
68 |
80 |
1.050000 |
0 |
|
Ecology |
Cleaning GBIF data using OpenRefine |
https://training.galaxyproject.org//topics/ecology/tutorials/openrefine_gbif/tutorial.html |
|
|
2025-01-21 |
2025-06-03 |
5 |
True |
False |
False |
False |
interactive_tool_openrefine, regex1 |
UseGalaxy.eu, UseGalaxy.fr |
|
0 |
|
228 |
275 |
6.016667 |
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, create_account, iframe, jbrowse, list_organism |
UseGalaxy.be |
UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.no |
0 |
|
3356097 |
7865909 |
13.083333 |
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 |
Sequence annotation, Genome annotation, Gene prediction, Sequence alignment, Genome visualisation, Differential protein expression profiling, Sequence assembly validation |
2025-03-17 |
2025-06-20 |
4 |
True |
False |
False |
True |
gffread, fasta-stats, omark, busco, braker3, rna_star, jbrowse |
|
|
0 |
|
1911 |
2310 |
4.550000 |
0 |
|
Genome Annotation |
Masking repeats with RepeatMasker |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/repeatmasker/tutorial.html |
Sequence composition, complexity and repeats, Genomics |
Genome annotation, Mapping, Repeat sequence detection, RNA-Seq analysis, Editing |
2021-11-29 |
2025-06-03 |
22 |
True |
False |
True |
True |
repeatmodeler, repeatmasker_wrapper, red, bedtools_maskfastabed |
UseGalaxy.org.au, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
|
0 |
|
10788 |
13667 |
4.116667 |
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 |
Sequence annotation, Genome annotation, Gene prediction, Sequence alignment, Genome visualisation, Differential protein expression profiling, Sequence assembly validation |
2025-06-20 |
2025-06-25 |
2 |
True |
False |
False |
True |
gffread, omark, busco, braker3, helixer, rna_star, jbrowse |
|
|
0 |
|
598 |
694 |
6.883333 |
0 |
|
Genome Annotation |
Genome annotation with Helixer |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/helixer/tutorial.html |
Biodiversity, Genomics, Zoology, Plant biology |
Sequence annotation, Gene prediction, Genome annotation, Genome visualisation, Differential protein expression profiling, Sequence assembly validation |
2024-08-21 |
2025-06-04 |
8 |
True |
False |
False |
True |
gffread, omark, busco, helixer, jcvi_gff_stats, jbrowse |
|
|
0 |
|
1509 |
1783 |
6.316667 |
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 |
Sequence alignment analysis, Database search, Coding region prediction, De-novo assembly, Phylogenetic tree generation, Transcriptome assembly, Multiple sequence alignment |
2022-09-08 |
2025-06-03 |
10 |
True |
False |
False |
True |
tab2fasta, bg_diamond, bg_diamond_view, regexColumn1, cat1, Add_a_column1, Cut1, Filter1, join1, tp_split_on_column, rapidnj, rbc_mafft, bg_diamond_makedb, collapse_dataset, gops_intersect_1, orfipy |
UseGalaxy.eu, UseGalaxy.org (Main) |
UseGalaxy.cz |
0 |
|
1995 |
2761 |
9.716667 |
0 |
|
Genome Annotation |
Genome annotation with Funannotate |
https://training.galaxyproject.org//topics/genome-annotation/tutorials/funannotate/tutorial.html |
Gene and protein families |
Genome annotation, Formatting, Query and retrieval, Protein feature detection, Genome visualisation, Homology-based gene prediction, Sequence assembly validation, Sequence annotation, Information extraction, Sequence alignment, Sequence motif recognition, Fold recognition |
2021-11-29 |
2025-06-10 |
26 |
True |
False |
True |
True |
aegean_parseval, funannotate_annotate, picard_MergeSamFiles, funannotate_compare, eggnog_mapper, busco, funannotate_predict, rna_star, interproscan, jbrowse |
UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz |
0 |
|
11515 |
16119 |
5.566667 |
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 |
Genome annotation, Information extraction, Protein feature detection, Sequence motif recognition, Query and retrieval, Fold recognition, Sequence alignment analysis, Homology-based gene prediction |
2022-07-20 |
2025-06-03 |
12 |
True |
False |
False |
True |
interproscan, ncbi_blastp_wrapper, eggnog_mapper, bg_diamond |
UseGalaxy.org.au, UseGalaxy.be, UseGalaxy.cz, UseGalaxy.eu, UseGalaxy.fr, UseGalaxy.org (Main) |
UseGalaxy.no |
0 |
|
4778 |
6317 |
6.100000 |
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.be, UseGalaxy.no |
UseGalaxy.cz, UseGalaxy.eu |
0 |
|
1596 |
2370 |
9.950000 |
0 |