galaxyproject / galaxyproject/training-material
Collection of tools and databases required for GTN that cannot be synchronized easily between the main servers
- Dominant language
- HTML
- Stars
- 367
- Forks
- 1.1k
- Avg merge
- 16h 27m
- Merged PRs (30d)
- 49
Description
* humann nucleotide and protein database: https://github.com/galaxyproject/usegalaxy-tools/issues/855 (missing on AU/ORG)
* kraken2 - 5 toturials, multiple DBs - should all be updated to 2024 versions on the servers and the tutorials
* blastn: https://training.galaxyproject.org/topics/assembly/tutorials/assembly-decontamination/tutorial.html
* DBs for https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/pathogen-detection-from-nanopore-foodborne-data/tutorial.html
* phyloseq IT (only in EU)
Will try to add to this list step by step. Still need to check versions of the DBs on the servers if they exist.
Contributor guide
Research direction
Start with the linked usegalaxy-tools issue and the Kraken2, blastn, and pathogen-detection tutorial URLs in the issue. Inventory the listed tools and databases across the servers and tutorials, then define completion as documenting the required versions and resolving the synchronization or availability gaps.
Written by the indexing model from the issue text.
Assessment
- Domain
- documentation, infrastructure
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 20/100