readIBS

A PLINK IBS (Identity by State) matrix is represented by<dl>
<dt>.mibs.bin:</dt>
<dd>IBS matrix in binary</dd><dt>.mibs.id :</dt>
<dd>FID and IID in text</dd>
</dl>A binary IBS matrix is the result of PLINK <code>--distance ibs bin</code>

Reads/write binary genotype file compatible with 'PLINK' <https://www.cog-genomics.org/plink/1.9/input#bed> into/from a R matrix; traverse genotype data one windows of variants at a time, like apply() or a for loop; reads/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> into/from a R square matrix. It is best used for bringing data produced by 'PLINK' and 'GCTA' into R workflow.

Xiaoran Tong

plinkFile

'PLINK' (and 'GCTA') File Helpers

readIBS function

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

Arguments

A PLINK IBS (Identity by State) matrix is represented by<dl>
<dt>.mibs.bin:</dt>
<dd>IBS matrix in binary</dd>

<dt>.mibs.id :</dt>
<dd>FID and IID in text</dd>


</dl>A binary IBS matrix is the result of PLINK <code>--distance ibs bin</code>

Read PLINK Binary IBS matrix — readIBS

<dl>

<dt>pfx</dt>
<dd>prefix of the IBS file set.</dd>


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

</dl>

readIBS: Read PLINK Binary IBS matrix

Description

Usage

Value

Arguments

Examples