SHLR (version 1.0)

read.shapeit.haps: Helper function to read phased haplotypes produces by SHAPEIT

Description

This function reads phased haplotypes produces by SHAPEIT and convert them into a data structure required by run.SHLR.scan()

Usage

read.shapeit.haps(infile)

Arguments

infile

The phased haplotype file produces by SHAPEIT

Value

• haps
  Haplotype array consists of one haplotype per row.
• marker.map
  Marker map contains information about marker name in the 1st column and marker position in the 2nd column