SelectVariantsByChromName: Select variants according to chromosome names specified by...

In ICAMS: In-Depth Characterization and Analysis of Mutational Signatures ('ICAMS')

Select variants according to chromosome names specified by user

Description

Select variants according to chromosome names specified by user

Usage

SelectVariantsByChromName(df, chr.names.to.process, name.of.VCF = NULL)

Arguments

df	An in-memory data.frame representing a VCF.
chr.names.to.process	A character vector specifying the chromosome names in df whose variants will be kept.
name.of.VCF	Name of the VCF file.

Value

A list with the elements

• df: A data frame with variants only from chromosomes specified by chr.names.to.process.

• discarded.variants: Non-NULL only if there are variants that are from chromosomes not specified by chr.names.to.process.

ICAMS documentation built on June 15, 2025, 1:08 a.m.