hsphase (version 1.2.3)

impute: Impute of Low Density SNP Marker to High Density (Parental strand)

Description

Impute the parental strand from low density to high density utilising high density sire haplotype

Usage

impute(halfsib_parental_ld, halfsib_block_ld, sire_ld, sire_hd)

Arguments

halfsib_parental_ld

half-sib parental strand (output of {phf} - the matrix should have rownames which are the sample IDs and colnames which are the SNP names)

halfsib_block_ld

halfsib block structure (Output ofbmh)

sire_ld

imputed sire (output of {ssp} - the matrix should have rownames which are the sample IDs and colnames which are the SNP names))

sire_hd

haplotype of sire (this parameter can be sequence data or any phased sire - the matrix should have rownames which are the sample IDs and colnames which are the SNP names))

Value

• Return an imputed half-sib matrix.

See Also

bmh, ssp and phf