Mutation_obj {bioCancer} | R Documentation |
Atribute mutation frequency to nodes
Mutation_obj(list,FreqMutThreshold, geneListLabel)
list |
A list of data frame with mutation data. Each data frame to study |
FreqMutThreshold |
threshold Rate of cases (patients) having mutation (0-1). |
geneListLabel |
file name of geneList examples: "73" |
A dat frame with mutation frequency. Ech column corresponds to a study.
cgds <- CGDS("http://www.cbioportal.org/") ## Not run: geneList <- whichGeneList("73") MutData <- getMutationData(cgds,"gbm_tcga_pub_all", "gbm_tcga_pub_mutations", geneList ) listMutData <- list(ls1=MutData, ls2=MutData) FreqMutThreshold <- 10 r_data <- new.env() MutObj <- Mutation_obj(listMutData, 10, "73") ## End(Not run)