Bioconductor Task View: Pathways

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Package Maintainer Title
annaffy Colin A. Smith Annotation tools for Affymetrix biological metadata
annotate Biocore Team c/o BioC user list Annotation for microarrays
Category Robert Gentleman Category Analysis
domainsignatures Florian Hahne Geneset enrichment based on InterPro domain signatures
gene2pathway Holger Froehlich Prediction of KEGG pathway membership for individual genes based on InterPro domain signatures
GlobalAncova R. Meister Calculates a global test for differential gene expression between groups
globaltest Jelle Goeman Testing Association of Groups of Genes with a Clinical Variable
GOSemSim Guangchuang Yu GO-terms Semantic Similarity Measures
KEGGgraph Jitao David Zhang KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor
keggorth VJ Carey graph support for KO, KEGG Orthology
KEGGSOAP Robert Gentleman Client-side SOAP access KEGG
miRNApath James M. Ward miRNApath: Pathway Enrichment for miRNA Expression Data
nem Christian Bender Nested Effects Models to reconstruct phenotypic hierarchies
occugene Oliver Will Functions for Multinomial Occupancy Distribution
qpgraph Robert Castelo Reverse engineering of molecular regulatory networks with qp-graphs