Networks Biology Python Packages

pybel

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

5K 139 34

bio2bel-kegg

A Bio2BEL package for integrating pathway-related information from KEGG in BEL

1K 13 3

bio2bel-reactome

Integration of pathway-related information from Reactome in BEL

1K 5 1

favapy

Functional Associations using Variational Autoencoders

458 43 5

bio2bel-entrez

A Bio2BEL package for converting Entrez and HomoloGene to BEL

455 0 0

spycone

Splicing-aware time-course network enricher - exploratory analysis for transcriptomics and/or proteomics time series data

333 10 1

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.

262 25 0

neet

Simulating and analyzing dynamical network models

184 6 10

bio2bel-drugbank

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

178 10 5

bel2scm

Generate dynamic structural causal models from biological knowledge graphs encoded in the Biological Expression Language (BEL)

171 10 4

pybel-cx

A PyBEL extension for interconversion with CX

163 0 0

drug2ways

A Python package for drug discovery by analyzing causal paths on multiscale networks

162 28 8

hbp-knowledge

Curation of Neurodegeneration in Biological Expression Language (CONIB)

150 4 7

bio2bel-interpro

A Bio2BEL package for converting InterPro to BEL

149 0 0

bel-commons

An environment for curating, validating, and exploring knowledge assemblies encoded in BEL

129 5 0

pathme-viewer

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

119 6 2

bio2bel-expasy

A Bio2BEL package for converting ExPASy to BEL

110 0 0

neuropull

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

91 2 0

bio2bel-go

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

73 1 0

hemekg

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

52 3 3

conib

Curation of Neurodegeneration in Biological Expression Language (CONIB)

48 4 7

fava-tool

Functional Associations using Variational Autoencoders

0 43 5