Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

provide UI option to select geneset from msigdb or blitz-gsea libraries #2737

Open
karishma-gangwani opened this issue Feb 5, 2025 · 0 comments
Open

provide UI option to select geneset from msigdb or blitz-gsea libraries #2737

karishma-gangwani opened this issue Feb 5, 2025 · 0 comments
Assignees
@xzhou82 @robinpaul85
Labels
bug Something isn't working enhancement New feature or request

Comments

@karishma-gangwani
Copy link
Contributor

current implementation with only msigdb shows limited overlap of genes with signaling pathways with some spurious results and showing -inf on gsea analyses. The idea is to modify routes/genesetEnrichment.ts to detect if geneset choice name ends with (blitzgsea) then do not query msigdb, but instruct python script to use the blitz in-built geneset library

UI idea (open to suggestions):
Image
@karishma-gangwani karishma-gangwani added bug Something isn't working enhancement New feature or request labels Feb 5, 2025
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@xzhou82 xzhou82

@robinpaul85 robinpaul85

Labels
bug Something isn't working enhancement New feature or request
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
3 participants
@xzhou82 @robinpaul85 @karishma-gangwani