read.seg.file: Read the segmented CNA file in TSV format.

In NKI-CCB/RUBIC: Recurrent DNA copy number break detection to identify driver aberrations

Description

Read the segmented CNA file in TSV format.

Usage

read.seg.file(seg.file, sample = 1, chromosome = 2, start = 3, end = 4,
  log.ratio = 6, header = T)

Arguments

seg.file	The name of the file containig the segmented CNA.
sample	The index of the sample name column in the seg.file.
chromosome	The index of the chromosome column in the seg.file.
start	The index of the segment start column in the seg.file.
end	The index of the segment end column in the seg.file.
log.ratio	The index of the segment log ratio column in the seg.file.
header	A boolean value that specifies whether the file contain a header line.

Value

A data.table containing the segmented CNA.

NKI-CCB/RUBIC documentation built on Dec. 17, 2021, 5:17 a.m.