This list data object contains 25 gene sets defined from the CPDB database and is used for testing purposes.
A list object with 25 character vectors.
An list object of 25 pathway gene sets from CPDB with gene symbols.
A. Kamburov, U. Stelzl, H. Lehrach and R. Herwig, The ConsensusPathDB interaction database: 2013 update, Nucleic Acids Research, Volume 41, Issue D1, Pp. D793-D800
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data(exgensets) # The gene set collection from CPDB can be formatted by: # "CPDB_pathways_genes.tab" is available in the download section in http://consensuspathdb.org/ # cpdb = readLines("CPDB_pathways_genes.tab", warn = FALSE) # cpdb = lapply(cpdb, function(x) strsplit(x, "\t")[]) # names(cpdb) = sapply(cpdb, function(x) paste(x, x, x, sep=":") ) # cpdb = lapply(cpdb, function(x) x[-c(1:3)]) # cpdb = cpdb[-length(cpdb)] # cpdb = lapply(cpdb, function(x) strsplit(x, ",")[])
Loading required package: c3net Loading required package: igraph Attaching package: 'igraph' The following objects are masked from 'package:stats': decompose, spectrum The following object is masked from 'package:base': union Loading required package: infotheo Loading required package: Matrix Loading required package: lattice
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