dot-bed6tobed12: Creates a BED12 file from a BED6 file using unique columns of...

In helen-zhu/DPDE4PM: A Method for Peak Merging Across Biological Replicates

Description

Creates a BED12 file from a BED6 file using unique columns of ID.COLS

Usage

.bed6tobed12(MERGED.PEAKS, ID.COLS)

Arguments

MERGED.PEAKS	A GRanges Object, in BED6 format for the merged peaks
ID.COLS	Column names of columns whose unique values are used to merge peaks

Value

A BED12 file of merged peaks

chr

chromosomes, same as in GTF file

start

starting position of the peak, base 0

end

end position of the peak, base 0

name

gene id

score

p-value associated with the peak

strand

strand of the gene

blockCount

number of segments in the peak

blockSizes

size of segments in the peak, BED12 notation

blockStarts

starting positions of segments, BED12 notation

helen-zhu/DPDE4PM documentation built on Feb. 17, 2021, 9:46 a.m.