Performs survival analysis for a geneset
Similar to mafSurvival but for a geneset
mafSurvGroup( maf, geneSet = NULL, clinicalData = NULL, time = "Time", Status = "Status" )
maf |
|
geneSet |
gene names for which survival analysis needs to be performed. Samples with mutations in ALL of the genes provided are used as genes-set mutants. |
clinicalData |
dataframe containing events and time to events. Default looks for clinical data in annotation slot of |
time |
column name contining time in |
Status |
column name containing status of patients in |
Survival plot
laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
laml.clin <- system.file("extdata", "tcga_laml_annot.tsv", package = "maftools")
laml <- read.maf(maf = laml.maf, clinicalData = laml.clin)
mafSurvGroup(maf = laml, geneSet = c('DNMT3A', 'FLT3'), time = 'days_to_last_followup', Status = 'Overall_Survival_Status')Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.