plotLD

Visualizes the linkage disequilibrium (LD) matrix using a color gradient.
The function produces an image plot with custom color mapping.

internal

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

plotLD function

<dl><dt>LD</dt>
<dd>A matrix representing the LD values to be plotted. Each element should be 
a numeric value, typically between 0 and 1, representing the degree of LD.
Rows and columns of the matrix should correspond to specific genetic markers (e.g., SNPs).</dd>
<dt>cols</dt>
<dd>A color palette to use for the plot. By default, it creates a blue gradient 
ranging from light blue ('#f0f3ff') to dark blue ('#0033BB').</dd></dl>

Arguments

Plot LD Matrix — plotLD

<dl>

<dt>LD</dt>
<dd>A matrix representing the LD values to be plotted. Each element should be 
a numeric value, typically between 0 and 1, representing the degree of LD.
Rows and columns of the matrix should correspond to specific genetic markers (e.g., SNPs).</dd>


<dt>cols</dt>
<dd>A color palette to use for the plot. By default, it creates a blue gradient 
ranging from light blue ('#f0f3ff') to dark blue ('#0033BB').</dd>

</dl>

plotLD: Plot LD Matrix

Description

Usage

Value

Arguments