gblup

Compute Genomic BLUP values based on linear mixed model fit output from greml

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Provides an infrastructure for efficient processing of large-scale genetic and phenotypic data including core functions for: 1) fitting linear mixed models, 2) constructing marker-based genomic relationship matrices, 3) estimating genetic parameters (heritability and correlation), 4) performing genomic prediction and genetic risk profiling, and 5) single or multi-marker association analyses.
Rohde et al. (2019) <doi:10.1101/503631>.

Peter Soerensen

Statistical Tools for Quantitative Genetic Analyses

Palle Duun Rohde

Izel Fourie Soerensen

gblup function

<dl><dt>GRMlist</dt>
<dd>list providing information about GRM matrix stored in binary files on disk</dd>
<dt>GRM</dt>
<dd>list of one or more genomic relationship matrices</dd>
<dt>fit</dt>
<dd>list object output from greml function</dd>
<dt>ids</dt>
<dd>vector of ids for which BLUP values is computed</dd>
<dt>idsCLS</dt>
<dd>vector of column ids in GRM for which BLUP values is computed</dd>
<dt>idsRWS</dt>
<dd>vector of row ids in GRM for which BLUP values is computed</dd></dl>

Arguments

Compute Genomic BLUP values — gblup

<dl>

<dt>GRMlist</dt>
<dd>list providing information about GRM matrix stored in binary files on disk</dd>


<dt>GRM</dt>
<dd>list of one or more genomic relationship matrices</dd>


<dt>fit</dt>
<dd>list object output from greml function</dd>


<dt>ids</dt>
<dd>vector of ids for which BLUP values is computed</dd>


<dt>idsCLS</dt>
<dd>vector of column ids in GRM for which BLUP values is computed</dd>


<dt>idsRWS</dt>
<dd>vector of row ids in GRM for which BLUP values is computed</dd>

</dl>

gblup: Compute Genomic BLUP values

Description

Usage

Arguments