Metadata-Version: 2.1
Name: enan
Version: 1.0.2
Summary: a package for ENrichment ANalyses
Home-page: https://github.com/mizuno-group
Author: tadahaya mizuno
Author-email: tadahaya@gmail.com
License: MIT
Keywords: omics,bioinformatics,transcriptome,chemoinformatics
Platform: UNKNOWN
Classifier: Development Status :: 5 - Production/Stable
Classifier: Environment :: Win32 (MS Windows)
Classifier: Framework :: IPython
Classifier: Intended Audience :: Science/Research
Classifier: Operating System :: Microsoft :: Windows :: Windows 10
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3.6
Description-Content-Type: text/markdown
Requires-Dist: numpy
Requires-Dist: scipy
Requires-Dist: pandas
Requires-Dist: statsmodels
Requires-Dist: tqdm
Requires-Dist: xlrd
Requires-Dist: matplotlib
Requires-Dist: seaborn

# 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](https://www.gsea-msigdb.org/gsea/msigdb/index.jsp)  
* [EnrichR](https://amp.pharm.mssm.edu/Enrichr/)  
* [CMap](https://portals.broadinstitute.org/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:  
* tadahaya@gmail.com  
* tadahaya@mol.f.u-tokyo.ac.jp
* tadahaya@g.ecc.u-tokyo.ac.jp


