Armin Dadras
Affiliations
UFR
EuroScienceGatewayContributions
The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.
Tutorials
- Proteomics / Secretome Prediction π§
- Proteomics / Peptide and Protein ID using SearchGUI and PeptideShaker π§
- Proteomics / Peptide and Protein ID using OpenMS tools π§
- Proteomics / Label-free versus Labelled - How to Choose Your Quantitation Method π§
- Proteomics / Peptide and Protein Quantification via Stable Isotope Labelling (SIL) π§
- Proteomics / Mass spectrometry imaging: Loading and exploring MSI data π§
- Proteomics / Detection and quantitation of N-termini (degradomics) via N-TAILS π§
- Proteomics / Protein FASTA Database Handling π§
- Introduction to Galaxy Analyses / From peaks to genes π π§
- Introduction to Galaxy Analyses / NGS data logistics π π§
- Introduction to Galaxy Analyses / Galaxy Basics for genomics π π§
- Contributing to the Galaxy Training Material / Preview the GTN website as you edit your training material π§
- Contributing to the Galaxy Training Material / Creating content in Markdown π§
- Contributing to the Galaxy Training Material / Tools, Data, and Workflows for tutorials π§
- Contributing to the Galaxy Training Material / Creating Interactive Galaxy Tours π§
- Teaching and Hosting Galaxy training / Running a workshop as instructor π§
- Epigenetics / Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1) π§
- Epigenetics / Identification of the binding sites of the Estrogen receptor π§
- Epigenetics / Formation of the Super-Structures on the Inactive X π§
- Variant Analysis / Exome sequencing data analysis for diagnosing a genetic disease π§
- Single Cell / Single-cell ATAC-seq standard processing with SnapATAC2 π§
- Single Cell / Pre-processing of Single-Cell RNA Data π§
- Single Cell / GO Enrichment Analysis on Single-Cell RNA-Seq Data π§
- Galaxy Server administration / Customizing the look of Galaxy π§
- Galaxy Server administration / Setting up Celery Workers for Galaxy π§
- Galaxy Server administration / Configuring the Onedata connectors (remotes, Object Store, BYOS, BYOD) π§
- Galaxy Server administration / Customizing the look of Galaxy (Manual) π§
- Galaxy Server administration / Use Apptainer containers for running Galaxy jobs π§
- Galaxy Server administration / Connecting Galaxy to a compute cluster π§
- Galaxy Server administration / Galaxy Interactive Tools π§
- Galaxy Server administration / Galaxy Installation with Ansible π§
- Galaxy Server administration / Running Jobs on Remote Resources with Pulsar π§
- Galaxy Server administration / Galaxy Database schema π§
- Galaxy Server administration / Galaxy Monitoring with Reports π§
- Imaging / Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy π§
- FAIR Data, Workflows, and Research / RO-Crate - Introduction π§
- FAIR Data, Workflows, and Research / RO-Crate in Python π§
- FAIR Data, Workflows, and Research / Best practices for workflows in GitHub repositories π§
- Transcriptomics / Reference-based RNA-Seq data analysis π§
- Transcriptomics / Visualization of RNA-Seq results with Volcano Plot π
- Statistics and machine learning / Clustering in Machine Learning π§
- Statistics and machine learning / Classification in Machine Learning π§
- Statistics and machine learning / Machine learning: classification and regression π§
- Statistics and machine learning / Introduction to deep learning π§
- Statistics and machine learning / Fine tune large protein model (ProtTrans) using HuggingFace π§
- Statistics and machine learning / Regression in Machine Learning π§
- Statistics and machine learning / A Docker-based interactive Jupyterlab powered by GPU for artificial intelligence in Galaxy π§
- Statistics and machine learning / Age prediction using machine learning π§
- Statistics and machine learning / Basics of machine learning π§
- Computational chemistry / High Throughput Molecular Dynamics and Analysis π§
- Using Galaxy and Managing your Data / Automating Galaxy workflows using the command line π§
- Using Galaxy and Managing your Data / Creating high resolution images of Galaxy Workflows π§
- Using Galaxy and Managing your Data / Getting started with Onedata distributed storage π§
- Using Galaxy and Managing your Data / Exporting to Onedata remote π§
- Using Galaxy and Managing your Data / Importing (uploading) data from Onedata π§
- Using Galaxy and Managing your Data / Understanding Galaxy history system π§
- Using Galaxy and Managing your Data / RStudio in Galaxy π π§
- Using Galaxy and Managing your Data / Onedata user-owned storage π§
- Development in Galaxy / Galaxy Webhooks π§
- Development in Galaxy / JavaScript plugins π§
- Development in Galaxy / Setting up a dev Onedata instance π§
Slides
- Galaxy Server administration / Gearing towards production π§
- Transcriptomics / Introduction to Transcriptomics π§
- Statistics and machine learning / Classification in Machine Learning π§
- Statistics and machine learning / Fine-tuning Protein Language Model π§
- Statistics and machine learning / Regression in Machine Learning π§
- Statistics and machine learning / Introduction to Machine learning π§
- Development in Galaxy / Tool development and integration into Galaxy π§
FAQs
- How do I cite the tools I used in my history?
- How do I manage my Galaxy storage?
- How do I manage my repositories on Galaxy?
- How do I re-use equivalent jobs in Galaxy (aka Job Cache)?
Events
- Galaxy Training Academy 2025 πͺ π§βπ«
GitHub Activity
github Issues Reported
13 Merged Pull Requests
See all of the github Pull Requests and github Commits by Armin Dadras.
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Updated the list of tools with short IDs. Sorted alphabetically.
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Added a FAQ for exporting citations of a history.
faqs
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Added search by topic following previous format.
template-and-tools
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Update 2025-05-12-galaxy-academy-2025.md
template-and-tools
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**Ready for Review** | galaxy-intro-101 tutorial |updated the workflow, tutorial, tools, and text.
introductionfaqs
Reviewed 11 PRs
We love our community reviewing each other's work!
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Added search by topic following previous format.
template-and-tools
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Update 2025-05-12-galaxy-academy-2025.md
template-and-tools
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**Ready for Review** | galaxy-intro-101 tutorial |updated the workflow, tutorial, tools, and text.
introductionfaqs
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Added admin survey as a news post
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**Ready for Review** | NGS data logistics |updated the workflow, tutorial, tools, and text.
introductionfaqs
News
Survey about a week-long Galaxy Admin Training in Europe
External Links
Favourite Topics
Favourite Formats