DEGA: A Python Package for Differential Gene Expression Analysis

Differential gene expression analysis is an important tool for identifying genes that display a significantly altered expression in response to specific stimuli.
DEGA is a Python package for differential expression analysis. It is an implementation of the core algorithm of the R package DESeq2. Along with the differential testing algorithm, DEGA also provides high-level functions for dataset exploration and results interpretation (such as switch genes identification).

Installation

pip install DEGA

Quick Start

import DEGA

dega = DEGA.dataset(countsData, phenotypeData, designFormula="factor")
dega.analyse()

For a complete use case check the Jupyter Notebook
For a switch genes identification example check the Jupyter Notebook