WikiPathways

Open source software development related to the WikiPathways project

Pinned Repositories

cord-19
Pathway knowledge extracted from CORD-19 dataset for the fight against COVID-19
Language:HTML8 14 12
cxsd
Streaming XSD parser and XML parser generator with TypeScript output
Language:TypeScript11 2 06
cytoscape-wikipathways-app
WikiPathways app for Cytoscape to open and access pathways from WikiPathways
Language:Java5 9 1317
pathway-figure-ocr
Extracting gene sets from published pathway figures
Language:Jupyter Notebook15 15 332
pvjs
JavaScript-based pathway viewer and editor
Language:TypeScript33 16 32919
pywikipathways
Python Client Package for WikiPathways
Language:Python15 15 23
rWikiPathways
R package for WikiPathways API
Language:HTML15 15 296
wikipathways-database
WikiPathways Database
Language:Shell3 13 4115
wikipathways.github.io
GitHub pages for GPML-Repo
Language:HTML5 13 8618
wikipathways.org
The main web site for the WikiPathways project.
Language:PHP9 13 1158

WikiPathways's Repositories

wikipathways/wikipathways.org
The main web site for the WikiPathways project.
Language:PHP9 13 1158
wikipathways/cord-19
Pathway knowledge extracted from CORD-19 dataset for the fight against COVID-19
Language:HTML8 14 12
wikipathways/cxml
Advanced schema-aware streaming XML parser
Language:TypeScript4 2 05
wikipathways/wikipathways-api-client-js
JS client for WikiPathways.org API
Language:JavaScript2 8 11
wikipathways/gpml2unifiedsvg
Convert GPML files to SVG files, with unified identifiers. Hosted on Toolforge.
Language:Shell1 5 0
wikipathways/PFOCRInPathwayAnalyses
Language:R1 2 0
wikipathways/wikipathways-api-client-py
Python API client for WikiPathways webservices.
Language:Python1 14 6
wikipathways/WikiPathways-SPARQL-book
WikiPathways SPARQL Book
Language:Groovy1 6 02
wikipathways/cptac-modules
Pathway modules for CPTAC
Language:Nix5 0
wikipathways/data
demo for a Markdown-based data download page.
4 0
wikipathways/gpml2cx
Convert GPML to CX format
Language:Python13 0
wikipathways/GSEAbenchmarking-adaption
13 0
wikipathways/mediawiki-extensions-WikiPathways
Main WikiPathways extension
Language:JavaScript16 11
wikipathways/mediawiki-extensions-WikiPathways-GPMLConverter
Convert GPML to other file formats
Language:Nix16 31
wikipathways/ncbi2postgresql
Load NCBI data into PostgreSQL database
Language:Shell4 0
wikipathways/pathway-modules
Collection of commonly used pathway modules, in gpml format
5 0
wikipathways/pfocr2ndex
Sync PFOCR data w/ NDEx
Language:Jupyter Notebook4 0
wikipathways/playground-database
13 04
wikipathways/project-stats
generic tools to collect project stats based on publications and github
Language:Python12 0
wikipathways/reactome-curation
Repository aimed at tracking curation events in WikiPathways of Reactome content.
10 4
wikipathways/reactome2gpml-mysql-docker
Language:Shell4 0
wikipathways/repository
GPML repository
3 03
wikipathways/scholia
Wikidata scholarly profiles
Language:JavaScript2 1
wikipathways/Scripts_NAR2021
Language:Jupyter Notebook3 0
wikipathways/SuLab-scheduled-bots
GeneWiki Scheduled Bots
Language:Python2 0
wikipathways/tool-wikipathways2wiki
Placeholder for toolforge repo for wikipathways2wiki
Language:Nix16 4
wikipathways/wikipathways-upgrade-UM
5 27
wikipathways/WikiPathwaysInteractions
Jupyter Notebook SPARQL queries against the WikiPathways SPARQL Endpoint
Language:Jupyter Notebook1 0
wikipathways/Wikipedia-template
This repo contains the necessary scripts and documentation for creating Wikipedia templates of WikiPathways content
Language:Perl4 0
wikipathways/WPReactomeUploader
Script to Upload Reactome pathways in Wikipathways using the Wikipathways webservice
Language:Java