rngVcf2df: Convert ranges to data.frame

In timflutre/rutilstimflutre: Timothee Flutre's personal R code

Convert ranges to data.frame

Description

Non-bi-allelic variants are discarded.

Usage

rngVcf2df(
  vcf,
  with.coords = TRUE,
  with.alleles = TRUE,
  single.ref = FALSE,
  single.alt = FALSE
)

Arguments

vcf	CollapsedVCF (see pkg VariantAnnotation)
with.coords	if TRUE, the output will contain variant coordinates
with.alleles	if TRUE, the output will contain variant alleles
single.ref	if TRUE, only records with a single 'ref' are kept
single.alt	if TRUE, only records with a single 'alt' are kept

Value

data.frame with variants in rows

Author(s)

Timothee Flutre

See Also

subsetVcfOnAllelicity

timflutre/rutilstimflutre documentation built on Feb. 7, 2024, 8:17 a.m.