getListProfData {bioCancer} | R Documentation |
get list of data frame with profiles data (CNA,mRNA, Methylation, Mutation...)
getListProfData(panel, geneListLabel)
panel |
Panel name (string) in which Studies are selected. There are two panels ("Circomics" or "Networking") |
geneListLabel |
The label of GeneList. There are three cases: "Genes" user gene list, "Reactome_GeneList" GeneList plus genes from reactomeFI "file name" from Examples |
A LIST of profiles data (CNA, mRNA, Methylation, Mutation, miRNA, RPPA). Each dimension content a list of studies.
cgds <- CGDS("http://www.cbioportal.org/") ## Not run: geneList <- whichGeneList("73") r_data <- new.env() MutData <- cgdsr::getMutationData(cgds,"gbm_tcga_pub_all", "gbm_tcga_pub_mutations", geneList ) FreqMut <- getFreqMutData(list(ls1=MutData, ls2=MutData), "73") input <- NULL input[['StudiesIDCircos']] <- c("luad_tcga_pub","blca_tcga_pub") ListProfData <- getListProfData(panel= "Circomics","73") ## End(Not run)