zqfang/GSEApy: gseapy-v1.2.1

Zenodo (CERN European Organization for Nuclear Research)

Abstract

What's Changed Use importlib.metadata for version lookup in CLI entrypoint by @Copilot in https://github.com/zqfang/GSEApy/pull/332 add organism keyword to GSEA, Prerank, GSEA, ssGSEA by @zqfang in https://github.com/zqfang/GSEApy/pull/331 Fix DotPlot dot area scaling to be linear with Hits_ratio by @Copilot in https://github.com/zqfang/GSEApy/pull/336 Fix FDR computation to be scoped per gene set library instead of globally by @Copilot in https://github.com/zqfang/GSEApy/pull/335 Fix signal_to_noise metric: apply GeneCluster sigma correction to match GSEA reference implementation by @Copilot in https://github.com/zqfang/GSEApy/pull/337 Fix non-reproducible prerank NES/FDR results across installations by @Copilot in https://github.com/zqfang/GSEApy/pull/338 Replace zero permutation p-values with minimum detectable value (1/n_perm) by @Copilot in https://github.com/zqfang/GSEApy/pull/342 Add GO term level filtering via standalone GOFilter class by @Copilot in https://github.com/zqfang/GSEApy/pull/340 Modernize build & dev environment with uv by @zqfang in https://github.com/zqfang/GSEApy/pull/343 Add fgsea multilevel p-value algorithm to GSEApy Rust backend by @Copilot in https://github.com/zqfang/GSEApy/pull/349 Update pyo3 to 0.28 and fix FromPyObject deprecations by @Copilot in https://github.com/zqfang/GSEApy/pull/348 Fix TypeError in download_library when server response has no charset encoding by @Copilot in https://github.com/zqfang/GSEApy/pull/354 Full Changelog: https://github.com/zqfang/GSEApy/compare/v1.1.13...v1.2.1

Authors 21

1. Zhuoqing Fang

   Stanford University

   Affiliation as printed

   Stanford

2. Charles Tapley Hoyt Aachen

   RWTH Aachen University

   Affiliation as printed

   RWTH Aachen University

3. Alex Wolf
   Affiliation as printed

   Lamin

4. Pearcekieser
5. Yuxing Liao
6. wrb2012
7. Abhijit Deo

   Birla Institute of Technology and Science, Pilani

   Affiliation as printed

   BITS PILANI | @SforAiDL

8. Alireza Majd
9. Austin McKay
10. Fabian Fröhlich

    The Francis Crick Institute

    Affiliation as printed

    The Francis Crick Insitute

11. Fairlie Reese
12. Can Hou
13. Jacob Kimmel
    Affiliation as printed

    @newlimit

14. Qing
15. Brendan Shanny-Csik
16. hsiao yi
17. Justin Finkle
18. Liu Xiaohui
    Affiliation as printed

    Singapore Power Digital

19. Daniel Pirak
20. quasi-deus
21. sorrge