bed_shuffle: Shuffle input intervals.

In valr: Genome Interval Arithmetic

Shuffle input intervals.

Description

Shuffle input intervals.

Usage

bed_shuffle(
  x,
  genome,
  incl = NULL,
  excl = NULL,
  max_tries = 1000,
  within = FALSE,
  seed = 0
)

Arguments

x	ivl_df
genome	genome_df
incl	ivl_df of included intervals
excl	ivl_df of excluded intervals
max_tries	maximum tries to identify a bounded interval
within	shuffle within chromosomes
seed	seed for reproducible intervals

Value

ivl_df

See Also

https://bedtools.readthedocs.io/en/latest/content/tools/shuffle.html

Other randomizing operations: bed_random()

Examples

genome <- tibble::tribble(
  ~chrom, ~size,
  "chr1", 1e6,
  "chr2", 2e6,
  "chr3", 4e6
)

x <- bed_random(genome, seed = 1010486)

bed_shuffle(x, genome, seed = 9830491)

valr documentation built on Sept. 11, 2024, 7:22 p.m.