Biological Networks Python Packages

corneto

Unified knowledge-driven network inference from omics data

geneplexus

A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.

recon

Exploring multicellular coordination from single-cell gene expression / multi-omics using mutlilayer network representations

onto-merger

OntoMerger is an ontology alignment library for deduplicating knowledge graph nodes that represent the same domain.

elastic-st

A python data science library to build and analyze biological networks from spatial transcriptomics data. Allows inclusion of spatial information into the networks, going a step beyond graphs derived from scRNA-seq techniques.

reactomepy

Explore biomolecular pathways in Reactome from the command-line or a Python script