subDose {hoardeR}

Rewrite the Dose File from a Beagle Output

Description

This function takes a Dose Beagle output and rewrites the output.

Usage

  subDose(file=NULL, vmmk=NULL, out=NULL, removeInsertions=TRUE, verbose=TRUE)

Arguments

file

Location of the original Beagle file (String).

vmmk

Location of the Variant Map Master key (String).

out

Name and location of the output file (String).

verbose

The function gives feedback.

removeInsertions

All Indels will be removed..

Details

This function takes a Beagle Dose file and rewrites the alleles from numerical to character, based on the information provided in a variant map master key.

Value

A rewritten beagle phased file.

Author(s)

Daniel Fischer