Enrichment Analysis Python Packages

gseapy

Gene Set Enrichment Analysis in Python

decoupler

Python package to perform enrichment analysis from omics data.

gget

🧬 gget enables efficient querying of genomic reference databases

dbretina

DBRetina Python Package

pygna

A Python package for gene network analysis

biodbs

Unified Python interface for biological databases

keggtools

Library for KEGG pathway enrichment analysis

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.

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.

ct-validation

Benchmarking gene-indication evidence against clinical trial outcomes