#PyGProfile

Installation

Clone this repository and then:

$ cd PyGProfile/
$ python setup.py install --user

This will install the scripts in the pygprofile/scripts directory. For more information on the individual scripts, use the --help command after each script.

##Summary

• pygp_go.py - TopGO, GOstats and goProfiles wrapper for running GO enrichment analysis from DESEQ2 results or custom input. Also a GO term finder included
• pygp_path.py - Wrapper for SPIA pathway enrichment analysis and also a simple hypergeometric test for pathway gene enrichment.
• pygp_pheno.py - Takes an expression matrix with ensembl gene ids on the first column and returns a matrix containing phenotypic annotations from MGI
• pygp_tfs.py - Selects mouse TF's from a gene expression matrix. Uses AnimalTFDB for annotation of TF's