Enrichment Analysis Python Packages

gseapy

Gene Set Enrichment Analysis in Python

gget

🧬 gget enables efficient querying of genomic reference databases

decoupler

Python package to perform enrichment analysis from omics data.

risk-network

RISK: a next-generation tool for biological network annotation and visualization

dbretina

DBRetina Python Package

himalayas

HiMaLAYAS: enrichment-based annotation and visualization of hierarchically clustered matrices

biodbs

Unified Python interface for biological databases

pygna

A Python package for gene network analysis

keggtools

Library for KEGG pathway enrichment analysis

ct-validation

Benchmarking gene-indication evidence against clinical trial outcomes

gokit

Command-line toolkit for Gene Ontology (GO) enrichment analysis

gopiscator

GOpiscator is a command-line tool for performing gene set enrichment analysis using the Gene Ontology (GO) database.

sceptr-profiling

Continuous enrichment profiling for transcriptomes. Characterise how functional programmes are distributed across the expression gradient, with built-in significance testing for single samples. Great for non-model organisms, clinical isolates, and unreplicated datasets.

enrichmentanalysis-dvklopfenstein

Generic enrichment analysis