genotype: Genotyping main function

In numbat: Haplotype-Aware CNV Analysis from scRNA-Seq

Genotyping main function

Description

Genotyping main function

Usage

genotype(label, samples, vcfs, outdir, het_only = FALSE, chr_prefix = TRUE)

Arguments

label	character Individual/sample label
samples	vector Sample names
vcfs	list of vcfR VCFs from cellsnp-lite pileup
outdir	character Output directory
het_only	logical Whether to only use heterozygous SNPs
chr_prefix	logical Whether to add chr prefix

Value

integer Status code

numbat documentation built on Feb. 4, 2026, 9:07 a.m.