readGRM

separator after family ID (def=NULL, use IID only)

GRM is the core formt of GCTA, which is an binary symmetric matrix with an
extra variant count matrix (VCM), this function reads the binary sysmmetric
matrix.

Provide function that reads binary genotype produced by 'PLINK' <https://www.cog-genomics.org/plink/1.9/input#bed> into a R matrix, or scan the genotype one variant at a time like apply(), it also provides functions that reads and writes genotype relatedness/kinship matrices created by 'PLINK' <https://www.cog-genomics.org/plink/1.9/distance#make_rel> or 'GCTA' <https://cnsgenomics.com/software/gcta/#MakingaGRM>. Currently it does not support writing back into 'PLINK' binary, it is best used for bringing data produced by 'PLINK' and 'GCTA' into R environment.

Xiaoran Tong

plinkFile

'PLINK' (and 'GCTA') File Helpers

readGRM function

<dl><dt>pfx</dt>
<dd>prefix of GRM file set</dd>
<dt>fid</dt>
<dd>separator after family ID (def=NULL, use IID only)</dd></dl>

Arguments

Read Genetic Related Matrix (GRM) of GCTA — readGRM

<dl>

<dt>pfx</dt>
<dd>prefix of GRM file set</dd>


<dt>fid</dt>
<dd>separator after family ID (def=NULL, use IID only)</dd>

</dl>

readGRM: Read Genetic Related Matrix (GRM) of GCTA

Description

Usage

Value

Arguments

Details

Examples