Read copy number as a list of data.frame from data.frame or files

This function is used to read copy number profile for preparing CNV signature analysis.

cnv_readprofile(input, is_dir = FALSE, pattern = NULL,
  ignore_case = FALSE, sep = "\t", cols = c("Chromosome",
  "Start.bp", "End.bp", "modal_cn"), have_sampleCol = TRUE,
  sample_col = "sample")

Arguments

input	a data.frame or a file or a directory contains copy number profile
is_dir	is input a directory?
pattern	an optional regular expression used to select part of files if input is a directory, more detail please see list.files function.
ignore_case	logical. Should pattern-matching be case-insensitive?
sep	the field separator character. Values on each line of the file are separated by this character.
cols	four characters used to specify chromosome, start position, end position and copy number value, respectively. Default use names from ABSOLUTE calling result.
have_sampleCol	Whether input have sample column or not. This argument must be TRUE and sample_col also properly be assigned when input is a file or a data.frame.
sample_col	a character used to specify the sample column name.

Value

a list contains absolute copy-number profile for multiple samples.