get_multisample_phasing: Generates phased haplotypes from multisample Battenberg runs

In Wedge-lab/battenberg: Battenberg subclonal copy number caller

Generates phased haplotypes from multisample Battenberg runs

Description

Generates phased haplotypes from multisample Battenberg runs

Usage

get_multisample_phasing(
  chrom,
  bbphasingprefixes,
  maxlag = 100,
  relative_weight_balanced = 0.25,
  outprefix
)

Arguments

chrom	chromosome for which to obtain haplotypes
bbphasingprefixes	Vector containing prefixes of the Battenberg_phased_chr files for the multiple samples
maxlag	Maximal number of upstream SNPs used to inform the haplotype at another SNPs
relative_weight_balanced	Relative weight to give to haplotype info from a sample without allelic imbalance in the region (default 0.25)
outprefix	Prefix of the ouput multisample phasing files

Author(s)

jdemeul

Wedge-lab/battenberg documentation built on July 31, 2023, 1:32 p.m.