wikipathways

Access to Biological Web Services from Python.

Python Client Package for WikiPathways

WikiPathways Database

The main web site for the WikiPathways project.

R package for pathway visualization

GPML2RDF converter

Mapping WikiPathways to chromosomes

Integration of pathway-related information from WikiPathways in BEL

Ready-to-use curated genesets for cinaR

Project to convert content of WPRDF into nanopublications.

Key Event enrichment of gene-expression data against molecular Adverse Outcome Pathways — Fisher/ORA and GSEA with FDR correction, interactive Cytoscape KE networks, batch cross-condition comparison and PDF reports. Consumes the molAOP Builder's mapping API.

Queries for the WikiPathways SPARQL endpoint.

Converts Reactome pathways to GPML format

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

Deposited R scripts allow to execute a complete RNA-seq Pipeline, starting from sequence reads (FASTQ files) to mapping/annotate the genome using a reference, to counts the number of reads for every gene. when raw counts are obtained, DESeq2 module permits to find differentially expressed genes (DEG) and to perform statistical analysis. The last…

A compilation of pathway gene sets

WikiPathways Summit Planning

Bioclipse plugins for WikiPathways and PathVisio

Collect chemical reactions from a GPML file and look for matching Rhea equations.

#metawinterschool contribution by BiGCaT