24 projects
pykeen
A package for training and evaluating multimodal knowledge graph embeddings
pubmed2pdf
A Python package to download PDFs from OA publications in PubMed
clep
A Hybrid Data and Knowledge Driven Framework for Generating Patient Representations
drug2ways
Reasoning over polar paths in biological networks for drug discovery applications
pybel
Parsing, validation, compilation, and data exchange of Biological Expression Language (BEL)
stonkgs
Sophisticated Transformers for Biomedical Text and Knowledge Graph Data
pybel-tools
A cool pool of tools for BEL
compath-resources
ComPath Resource Utilities
bio2bel-kegg
A package for converting KEGG gene sets into BEL
compath
A web application for exploring and comparing the overlaps across pathway resources
bio2bel-msig
A package for converting MSigDB gene sets into BEL
diffupath
Compute diffusion scores over networks from biological databases
diffupy
Compute diffusion scores over networks
pybel-jupyter
A PyBEL extension for Jupyter notebooks
pathme
Harmonizing pathway databases using Biological Expression Language (BEL)
compath-utils
A utilities package for ComPath
bio2bel-hgnc
A package for converting HGNC to BEL
pathway-forte
A Python package for comparing the effect of pathway database choice in functional enrichment and classification methods
ratvec
Generating dense embeddings for proteins using kernel PCA
pathme-viewer
A plugin for PathMe that allows to explore overlaps across pathway databases
bio2bel-wikipathways
A package for converting Wikipathways to BEL
bio2bel-chebi
A package for converting ChEBI to BEL
bio2bel-reactome
A wrapper around Reactome RESTful API
compath-hgnc
A package that wraps PyHGNC to perform mappings between different gene identifiers
