<p>10 SNPs from the "PGSC0003DMB000000062" super scaffold were genotyped
using the <code>multidog()</code> function from the updog R package.
These data are the resulting output.</p>

datasets

Estimate haplotypic or composite pairwise linkage disequilibrium
(LD) in polyploids, using either genotypes or genotype likelihoods.
Support is provided to estimate the popular measures of LD: the LD
coefficient D, the standardized LD coefficient D', and the Pearson
correlation coefficient r. All estimates are returned with corresponding
standard errors. These estimates and standard errors can then be used
for shrinkage estimation. The main functions are ldfast(), ldest(), mldest(),
sldest(), plot.lddf(), format_lddf(), and ldshrink(). Details of the methods
are available in Gerard (2021a) <doi:10.1111/1755-0998.13349>
and Gerard (2021b) <doi:10.1038/s41437-021-00462-5>.

David Gerard

ldsep

Linkage Disequilibrium Shrinkage Estimation for Polyploids

uit function

<p>An object of class <code>multidog()</code>.
See the documentation from the updog R package.</p>

uit: Updog fits on the data from Uitdewilligen et. al. (2013)

Description

Usage

Arguments

Format

References