getListProfData: get list of data frame with profiles data (CNA,mRNA,...

In bioCancer: Interactive Multi-Omics Cancers Data Visualization and Analysis

Description

get list of data frame with profiles data (CNA,mRNA, Methylation, Mutation...)

Usage

getListProfData(panel, geneListLabel)

Arguments

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

Value

A LIST of profiles data (CNA, mRNA, Methylation, Mutation, miRNA, RPPA). Each dimension content a list of studies.

Examples

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)

bioCancer documentation built on Nov. 8, 2020, 6:26 p.m.