.Binarize {segmenter} | R Documentation |
BinarizeBed
Call the Java module BinarizeBed
which binarize a bed file of the
aligned reads.
.Binarize(inputdir, cellmarkfiletable, chromsizefile, binsize, outputdir, type)
inputdir |
A string. The path to bed files. |
cellmarkfiletable |
A tab delimited files of three columns. The columns contains the cell, mark and the name or the bed file. |
chromsizefile |
A string. The path to the chromosomes sizes file. |
binsize |
An integer. The bin size to use. Default is 200. |
outputdir |
A string. The path to a directory where output will be written. |
type |
A string. The file type 'bam' or 'bed'. |
NULL
. Output files are written to the output directory.
binarize_bed