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saezlab / decoupler-py

Python package to perform enrichment analysis from omics data.
https://decoupler-py.readthedocs.io/
GNU General Public License v3.0
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Announcement: some Galaxy modules for some decoupler functionalities #97

Closed pcm32 closed 6 months ago

pcm32 commented 7 months ago

Not really a question, but I thought I'd let you know that we have by now a couple of Decoupler functionalities in Galaxy modules (Pseudo-bulk and AUCell, but working on a couple more). I could make them available in usegalaxy.eu. We also have a complete Galaxy workflow for Pseudo-bulk based on that module, using EdgeR downstream and producing GSEAs and others.

We develop them here https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/decoupler

And available here for installation on any Galaxy instance: https://toolshed.g2.bx.psu.edu/repository/browse_repositories?f-free-text-search=decoupler&sort=name&operation=view_or_manage_repository&id=6c8288160438138d https://toolshed.g2.bx.psu.edu/repository/browse_repositories?f-free-text-search=decoupler&sort=name&operation=view_or_manage_repository&id=b1b337fd21d9c731

Happy to add any required citations or others that we might have missed.

PauBadiaM commented 7 months ago

Oh wow, many thanks @pcm32 for taking the effort of implementing these into galaxy! :) Looks good to me, let me know if I can help in any way