readGenotype: Read and Check the Genotype File

In hsphase: Phasing, Pedigree Reconstruction, Sire Imputation and Recombination Events Identification of Half-sib Families Using SNP Data

Read and Check the Genotype File

Description

Reads a genotype file and optionally checks it for common formatting/data issues.

Usage

readGenotype(genotypePath, separatorGenotype = " ", check = TRUE)

Arguments

genotypePath	character. Path to the genotype file (animals in rows and SNPs in columns). SNPs should be coded as 0, 1, 2 for AA, AB, BB. Use 9 for missing data. Please refer to the vignette for more information.
separatorGenotype	character. Field separator used in the genotype file.
check	logical. If TRUE, check the genotype file for possible errors.

Value

A genotype matrix.

Note

Please refer to the vignette for more information.

hsphase documentation built on Feb. 17, 2026, 5:07 p.m.