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a package for ENrichment ANalyses

Project description

enan

a package for ENrichment ANalyses.
the following methods have been implemented:

  • Fisher's exact test (FET)
  • Binomial test (BT)
  • Gene set enrichment analysis (GSEA)
  • single sample GSEA (ssGSEA)
  • Connectivity analysis

Dependency

  • python 3.6
  • requirements: numpy, pandas, scipy, tqdm

Setup

pip install enan

  • for conda environment, please use skeleton

Usage

see samplecode.ipynb

Licence

This software is released under the MIT License.

Authors

MIZUNO Tadahaya

References

This package is inspired from the following brilliant databases and studies:

  • Nat Genet. 2003 Jul;34(3):267-73.
  • PNAS. October 25, 2005 102 (43) 15545-15550.
  • BMC Bioinformatics. 2013;128(14).
  • Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Research. 2016; gkw377 .
  • Science. 2006 Sep 29;313(5795):1929-35.
  • MsigDB
  • EnrichR
  • CMap

Bug Report

If you would like to report any bugs about this package, don't hesitate to create an issue on github here, or email me:

Project details


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