extractCoverageFromTxt {DEploid.utils} | R Documentation |
Extract read counts from plain text file
Description
Extract read counts from tab-delimited text files of a single sample.
Usage
extractCoverageFromTxt(refFileName, altFileName)
Arguments
refFileName |
Path of the reference allele count file. |
altFileName |
Path of the alternative allele count file. |
Value
A data.frame contains four columns: chromosomes, positions, reference allele count, alternative allele count.
Note
The allele count files must be tab-delimited. The allele count files contain three columns: chromosomes, positions and allele count.
Examples
refFile <- system.file("extdata", "PG0390-C.test.ref", package = "DEploid.utils")
altFile <- system.file("extdata", "PG0390-C.test.alt", package = "DEploid.utils")
PG0390 <- extractCoverageFromTxt(refFile, altFile)
[Package DEploid.utils version 0.0.1 Index]