bt.flank: Creates flanking interval(s) for each BED/GFF/VCF feature.

In PhanstielLab/bedtoolsr: Bedtools Wrapper

Creates flanking interval(s) for each BED/GFF/VCF feature.

Description

Creates flanking interval(s) for each BED/GFF/VCF feature.

Usage

bt.flank(
  i,
  g,
  b = NULL,
  l = NULL,
  r = NULL,
  s = NULL,
  pct = NULL,
  header = NULL,
  output = NULL
)

Arguments

i	<bed/gff/vcf>
g	<genome>
b	Create flanking interval(s) using -b base pairs in each direction. - (Integer) or (Float, e.g. 0.1) if used with -pct.
l	The number of base pairs that a flank should start from orig. start coordinate. - (Integer) or (Float, e.g. 0.1) if used with -pct.
r	The number of base pairs that a flank should end from orig. end coordinate. - (Integer) or (Float, e.g. 0.1) if used with -pct.
s	Define -l and -r based on strand. E.g. if used, -l 500 for a negative-stranded feature, it will start the flank 500 bp downstream. Default = false.
pct	Define -l and -r as a fraction of the feature's length. E.g. if used on a 1000bp feature, -l 0.50, will add 500 bp "upstream". Default = false.
header	Print the header from the input file prior to results.
output	Output filepath instead of returning output in R.

PhanstielLab/bedtoolsr documentation built on Nov. 13, 2022, 10:38 p.m.