PathwayAnalysisPlatform

PathwayMatcher_Dev

PathwayMatcher is a free, open-source software to search for pathways related to a list of proteins in Reactome. This repository is the development repository. For the latest version see: https://github.com/PathwayAnalysisPlatform/PathwayMatcher

PathwayMatcher

PathwayMatcher is a free, open-source software to search for pathways related to a list of genes, proteins or proteoforms in Reactome.

PathwayStructure

ProteoformNetworks

Tests to prove usefulness of proteoform networks

AnalysisGuidelines

CodeStyle

Guidelines for coding style across our projects.

Extractor

Tool for creating static mapping files from multiples data types to the reactions and pathways in the Reactome graph database.

MappingFiles

Tables create with Variant Effect Predictor (VEP) to map from genetic variants to gene names and Swiss Prot accessions.

Methods

Java implementation of Methods to search and analyse pathways

Model

Set of classes to represent the objects related to pathway analysis

PathwayMatcher_Publication

Source code, data files and figures for the PathwayMatcher manuscript.

Networks

Protein and proteoform interaction networks created from Pathways in Reactome.

PathFinder

ProteoformNetworks_resources

Data files and result tables for the project ProteoformNetworks, which compares the overlap between trait modules at gene and proteoform level.