sigminer (version 0.1.11)

read_variation: Read genomic variation profile

Description

Read CopyNumber and MAF object as a new S4 object GenomicVariation for uniform variation analysis. The function is initialized to construct structure of sigminer, please dont use it for now.

Usage

read_variation(copynumber, maf, clinical_data = NULL)

Arguments

copynumber

a CopyNumber object

maf

a MAF object

clinical_data

clinical.data data associated with each sample in copy number profile and MAF.

Value

a GenomicVariation object

See Also

Other read genomic variation data function series: read_copynumber, read_maf

Examples

# NOT RUN {
# Read MAF
laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
laml <- read_maf(maf = laml.maf)
# Load copy number object
load(system.file("extdata", "toy_copynumber.RData",
  package = "sigminer", mustWork = TRUE
))
# Combine as GenomicVariation object
gv <- read_variation(cn, laml)
# }