Repositories list

• wikipathways.github.io

  Public
  GitHub pages for GPML-Repo

  HTML

  •19•8•14•0•Updated Aug 4, 2025Aug 4, 2025

• wikipathways-database

  Public
  WikiPathways Database

  bioinformaticsbiologypathway-analysis+ 2wikipathwayspathway-enrichment-analysis

  Shell

  •16•11•15•0•Updated Aug 4, 2025Aug 4, 2025

• wikipathways-assets

  Public
  Accessory files generated downstream of approved GPMLs

  Creative Commons Zero v1.0 Universal

  •1•0•0•0•Updated Aug 4, 2025Aug 4, 2025

• wikipathways-homology

  Public
  Pathway database for homology-mapped content

  Creative Commons Zero v1.0 Universal

  •0•2•0•0•Updated Aug 4, 2025Aug 4, 2025

• wikipathways-collection

  Public
  Java

  •1•0•1•0•Updated Aug 3, 2025Aug 3, 2025

• WikiPathwaysCurator

  Public
  Unit tests that validate the WikiPathways content and support the curation of the knowledge base.

  Java

  •

  MIT License

  •2•1•10•0•Updated Jul 29, 2025Jul 29, 2025

• lipidmaps-wp-curation

  Public
  Curation of lipid pathways

  Java

  •1•2•0•0•Updated Jul 20, 2025Jul 20, 2025

• sr24-curation

  Public
  Java

  •0•0•0•0•Updated Jul 20, 2025Jul 20, 2025

• pfocr-pmcfigurebot

  Public
  Query figures indexed by PubMed Central and collect metadata

  R

  •

  Creative Commons Zero v1.0 Universal

  •4•1•0•0•Updated Jul 15, 2025Jul 15, 2025

• sandbox-wp-db

  Public
  Playground for new GPML processing and curation

  Shell

  •4•0•9•2•Updated Jul 14, 2025Jul 14, 2025

• wikipathways-data-release

  Public
  Monthly data release

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •0•1•2•0•Updated Jul 10, 2025Jul 10, 2025

• academy

  Public
  Organized training examples for new WikiPathways authors

  JavaScript

  •

  Creative Commons Zero v1.0 Universal

  •4•2•7•0•Updated Jul 7, 2025Jul 7, 2025

• pyzenodo4wpdata

  Public
  A pyzenodo library for archiving versions of WikiPathways data files

  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Jun 16, 2025Jun 16, 2025

• fdp

  Public
  Repository with the content of the WikiPathways FAIR Data Point.

  fdpfair-data-pointwikipathway

  HTML

  •0•0•4•0•Updated Jun 15, 2025Jun 15, 2025

• pywikipathways

  Public
  Python Client Package for WikiPathways

  pythonbiologywikipathways+ 1pathway-enrichment-analysis

  Python

  •

  MIT License

  •5•21•2•0•Updated May 30, 2025May 30, 2025

• WpVocabularies

  Public
  WikiPathways vocabularies for RDF representation

  Groovy

  •

  Apache License 2.0

  •3•1•5•0•Updated May 23, 2025May 23, 2025

• gpml2pvjson-js

  Public
  Convert GPML (WikiPathways XML format) to JSON-LD

  TypeScript

  •

  Apache License 2.0

  •1•2•8•19•Updated May 21, 2025May 21, 2025

• plants-subdomain

  Public
  HTML

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated May 13, 2025May 13, 2025

• wikipathways-help

  Public
  1•1•8•0•Updated May 2, 2025May 2, 2025

• gpml-cx2-ndex

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Apr 23, 2025Apr 23, 2025

• rWikiPathways

  Public
  R package for WikiPathways API

  bioinformaticspathwaysdata-access+ 1rpackage

  HTML

  •

  MIT License

  •6•17•7•0•Updated Apr 16, 2025Apr 16, 2025

• sandbox-wp.gh.io

  Public
  Sandbox mirror of wikipathways.github.io

  HTML

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• pfocr-database

  Public
  Jekyll setup and database for the Pathway Figure OCR project

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •4•0•7•0•Updated Apr 14, 2025Apr 14, 2025

• pvjs

  Public
  JavaScript-based pathway viewer and editor

  TypeScript

  •

  Apache License 2.0

  •19•35•17•20•Updated Feb 20, 2025Feb 20, 2025

• tsv-to-cx2

  Public
  Python

  •

  MIT License

  •0•1•0•0•Updated Feb 19, 2025Feb 19, 2025

• wikipathways-pmcfigurebot

  Public
  Query figures indexed by PubMed Central and collect metadata

  R

  •

  Creative Commons Zero v1.0 Universal

  •4•0•1•0•Updated Jan 6, 2025Jan 6, 2025

• SARS-CoV-2-WikiPathways

  Public
  Temporary repository of RDF of selected pathways from WikiPathways, supporting the Wikidata bot.

  wikipathwayscovid-19sars-cov-2

  Java

  •

  Creative Commons Zero v1.0 Universal

  •3•2•1•0•Updated Dec 30, 2024Dec 30, 2024

• wikipathways-api-client-java

  Public
  Java library for WikiPathways webservice

  Java

  •

  Apache License 2.0

  •4•1•3•1•Updated Dec 28, 2024Dec 28, 2024

• GPML2RDF

  Public
  GPML2RDF converter

  semantic-webwikipathwayswikipathways-gpml-files+ 1java

  Java

  •

  Apache License 2.0

  •2•4•40•0•Updated Dec 28, 2024Dec 28, 2024

• Jiffy

  Public template
  A template Jekyll site with wiki functionality

  HTML

  •

  MIT License

  •0•0•1•0•Updated Dec 11, 2024Dec 11, 2024