Networks Biology Python Packages

pybel

🌶️ An ecosystem in Python for working with the Biological Expression Language (BEL)

bio2bel-kegg

A package for converting KEGG gene sets into BEL

bio2bel-reactome

A wrapper around Reactome RESTful API

annnet

AnnNet (Annotated Network) is a unified, high-expressivity graph platform designed to bring the convenience of AnnData-style annotated containers to networks, multilayer structures, and hypergraphs.

bio2bel-entrez

A package for parsing and storing Entrez Gene

favapy

Functional Associations using Variational Autoencoders

spycone

A splicing-aware time course network enricher

hbp-knowledge

Curation of Neurodegeneration in Biological Expression Language (CONIB)

neet

Simulating and analyzing dynamical network models

bel2scm

A package for creating causal graphs in pyro

bio2bel-drugbank

A Bio2BEL package for DrugBank (https://www.drugbank.ca)

drug2ways

Reasoning over polar paths in biological networks for drug discovery applications

bio2bel-interpro

A Bio2BEL package for converting InterPro to BEL

pybel-cx

A PyBEL extension for interconversion with CX

bio2bel-expasy

A Bio2BEL package for converting ExPASy to BEL

bel-commons

A web application exposing core PyBEL functionalities

neuropull

A (soon to be) lightweight Python package for accessing single-cell connectome networks with metadata.

pathme-viewer

A web application for visualizing and exploring pathway knowledge in Biological Expression Language (BEL)

bio2bel-go

A Bio2BEL package for converting the Gene Ontology (GO) to BEL

conib

Curation of Neurodegeneration in Biological Expression Language (CONIB)

hemekg

Modeling heme pathogenicity and pathway dysregulation in the context of hemolytic disorders