removedExclProbe: Remove probes or SNPs

Description Usage Arguments Value Author(s)

Description

Remove probes or SNPs that may be duplicated, or with unexpected probe names, which should be defined in advance. For instance, one can define these probes in the configuration folder.

Usage

1
removedExclProbe(plink, inputPrefix, excludedProbeIdsFile, outputPrefix)

Arguments

plink

an executable PLINK program in either the current working directory or somewhere in the command path.

inputPrefix

the prefix of the input PLINK format files.

excludedProbeIdsFile

a pure text file that stores the probe IDs, which should be removed. If it is null, then copy and paste the input PLINK files from the last step.

outputPrefix

the prefix of the output PLINK format files.

Value

The output PLINK format files after removing unwanted probe IDs.

Author(s)

Junfang Chen <junfang.chen3@gmail.com>


Junfang/Gimpute documentation built on May 17, 2019, 10:11 p.m.