methyl_master_tcga_clin_data: methyl_master_tcga_clin_data

In mmariani123/MethylMasteR: What the Package Does (One Line, Title Case)

methyl_master_tcga_clin_data

Description

get primary ids from sample names from tcga clinical file

Usage

methyl_master_tcga_clin_data(
  clin.tcga.file.path = NULL,
  clin.sample.names = NULL,
  clin.copy.files = FALSE,
  clin.sample.sheet = TRUE,
  clin.idat.dir = getwd(),
  clin.sub.dir = NULL
)

Arguments

clin.tcga.file.path	The path to the tcga files
clin.sample.names	The sample names
clin.copy.files	Whether to copy the files to a different directory
clin.sample.sheet	Whether to use a sample sheet specifying files
clin.idat.dir	The idat dir
clin.sub.dir	The sub directory

Value

#outputs a vector or excel of primary ids for input tcga smamples names

mmariani123/MethylMasteR documentation built on June 22, 2022, 3:06 p.m.