bt.sort: Sorts a feature file in various and useful ways.

In PhanstielLab/bedtoolsr: Bedtools Wrapper

Sorts a feature file in various and useful ways.

Description

Sorts a feature file in various and useful ways.

Usage

bt.sort(
  i,
  sizeA = NULL,
  sizeD = NULL,
  chrThenSizeA = NULL,
  chrThenSizeD = NULL,
  chrThenScoreA = NULL,
  chrThenScoreD = NULL,
  g = NULL,
  faidx = NULL,
  header = NULL,
  output = NULL
)

Arguments

i	<bed/gff/vcf>
sizeA	Sort by feature size in ascending order.
sizeD	Sort by feature size in descending order.
chrThenSizeA	Sort by chrom (asc), then feature size (asc).
chrThenSizeD	Sort by chrom (asc), then feature size (desc).
chrThenScoreA	Sort by chrom (asc), then score (asc).
chrThenScoreD	Sort by chrom (asc), then score (desc).
g	Sort according to the chromosomes declared in "genome.txt"
faidx	Sort according to the chromosomes declared in "names.txt"
header	Print the header from the A file prior to results.
output	Output filepath instead of returning output in R.

PhanstielLab/bedtoolsr documentation built on Aug. 29, 2024, 5:37 p.m.