Creates matrix for oncoplot

Creates matrix for oncoplot from maf file

createOncoMatrix(maf, g = NULL, add_missing = FALSE)

Arguments

maf

The MAF object

g

g

add_missing

add_missing

Value

A list of objects to be used as an input for generateOncoPlot function

Author

Mayank Tandon, Ashish Jain

Examples

library(MAFDash)
library(maftools)
maf <- system.file("extdata", "test.mutect2.maf.gz", package = "MAFDash")
oncoMatrix<-createOncoMatrix(read.maf(maf),g=c("GNA11","MACF1"))
#> -Reading
#> -Validating
#> -Silent variants: 561 
#> -Summarizing
#> --Possible FLAGS among top ten genes:
#>   MACF1
#>   MUC16
#> -Processing clinical data
#> --Missing clinical data
#> -Finished in 0.286s elapsed (0.261s cpu)