Package 'pathview' - Bioconductor

4 cpd.accsReferencesLuo, W. and Brouwer, C., Pathview: an R/Bioconductor package for pathway based data integrationand visualization. Bioinformatics, 2013, 29(14): 1830-1831, doi: 10.1093/bioinformatics/btt285See Alsonode.info the main parser functioncpd.accsMapping data between compound or gene IDs and KEGG accessionsDescriptionMapping data between compound or gene IDs and KEGG accessionsUsagedata(cpd.accs)data(cpd.names)data(kegg.met)data(ko.ids)data(rn.list)data(gene.idtype.list)data(cpd.simtypes)Formatcpd.accs is a data frame with 30054 observations on the following 4 variables. cpd.names is a dataframe with 12314 observations on the following 5 variables. kegg.met is a character matrix of 694rows and 3 columns. ko.ids is a character vector 8511 KEGG ortholog gene IDs, as used in KEGGortholog pathways. rn.list is a namedlist of 21 vectors. Each vector records the row numbers forone of 21 dfferent compound ID types in cpd.accs data.frame. gene.idtype.list is a character vectorof 10 common gene, transcript or protein ID types. cpd.simtypes is a character vector of 7 commoncompound related ID types, each of them has over 1000 unique entries. Hence these ID types aregood for generating simulation compound data.Sourceftp://ftp.ebi.ac.uk/pub/databases/chebi/Flat_file_tab_delimited/http://www.genome.jp/kegg-bin/get_htext?br08001.keg