Changes in version 1.37.1 (2020-05-04) - Removed Biocarta and NCI pathways. - Added WikiPathways pathways. - Updated all pathway data. Changes in version 1.35.2 (2020-10-12) - Updated all pathway data. Changes in version 1.33.1 (2020-10-24) - Updated all pathway data. Changes in version 1.31.1 (2019-10-24) - Updated all pathway data. - Removed HumanCyc pathways (database now requires subscription). Changes in version 1.29.3 (2019-04-17) - Updated all pathway data. Changes in version 1.27.6 (2018-10-25) - Updated all pathway data. - Added PathBank database. Changes in version 1.27.2 (2018-05-22) - Vignette describing mixed analysis with genes and metabolites. Changes in version 1.25.9 (2018-04-28) - Updated all pathway data. Changes in version 1.25.7 (2018-04-18) - cytoscapePlot returns an handle to the exported graph. Changes in version 1.25.6 (2018-04-11) - Parallel versions of clipper and topologyGSA methods. Changes in version 1.25.3 (2018-03-23) - Faster conversion of identifiers. Changes in version 1.25.2 (2018-03-23) - Documentation fixes. - Removed deprecated objects biocarta, humancyc, kegg, nci, panther, reactome. Changes in version 1.25.1 (2017-12-13) - Export the pathwayURL function. Changes in version 1.23.7 (2017-10-19) - Provide the URL of each pathway in its original database. - New vignette describing pathway analysis of metabolic activities. Changes in version 1.23.6 (2017-10-18) - Removed DEGraph support. Changes in version 1.23.5 (2017-10-13) - runClipper gains an option to set the seed for random number generation. Changes in version 1.23.3 (2017-10-12) - Metabolites in pathways. - Multiple views of each pathway: proteins only, metabolites only or both. - New databases: SMPDB and PharmGKB. - Removed support for RCytoscape (by default, use RCy3). - Conversion of metabolite identifiers. - Faster conversion of idenfiers on multicore systems. Changes in version 1.21.1 (2017-04-24) - Updated all pathway data. Changes in version 1.19.3 (2016-10-07) - Updated all pathway data. Changes in version 1.17.6 (2016-04-26) - Added celegans pathways from KEGG. Changes in version 1.17.5 (2016-04-25) - Updated all pathway data. Changes in version 1.17.4 (2016-04-04) - Cytoscape 3 support. Changes in version 1.17.3 (2016-04-04) - Added the buildPathway function. Changes in version 1.15.3 (2015-10-07) - Updated all pathway data. - More descriptive edge types. - Use the package "rappdirs" to select a directory for cached files. Changes in version 1.13.2 (2015-04-02) - Pathways for multiple species: see pathwayDatabases() output. - Native pathway IDs. - Removed SPIKE database. - Deprecated objects: biocarta, humancyc, kegg, nci, panther, reactome. - Deprecated functions: runClipperMulti, runDEGraphMulti, runTopologyGSAMulti. Changes in version 1.11.4 (2014-10-01) - Updated Biocarta, KEGG, NCI, HumanCyc, Panther and Reactome data. Changes in version 1.15.3 (2015-10-07) - Updated all pathway data. - More descriptive edge types. - Use the package "rappdirs" to select a directory for cached files. Changes in version 1.9.4 (2014-04-04) - Updated Biocarta, KEGG, NCI and Reactome data. - New databases: HumanCyc and Panther.