get.dist.loci

Calculates the distance of a marker from some objective "truth".

Estimate genetic linkage maps for markers on a single chromosome (or in a single linkage group) from pairwise recombination fractions or intermarker distances using weighted metric multidimensional scaling. The methods are suitable for autotetraploid as well as diploid populations. Options for assessing the fit to a known map are also provided. Methods are discussed in detail in Preedy and Hackett (2016) <doi:10.1007/s00122-016-2761-8>.

Bram Boskamp

MDSMap

High Density Genetic Linkage Mapping using Multidimensional
Scaling

get.dist.loci function

<dl><dt>loci</dt>
<dd>Character string or number specifying the marker name.</dd>
<dt>estmap</dt>
<dd>Data frame in which has a column called "names" containing marker 
names and a column called "position" containing marker positions.</dd>
<dt>realmap</dt>
<dd>Data frame in which the first column contains marker names and 
the second column marker positions. Column names are not necessary.</dd></dl>

Arguments

Calculates the distance of a marker from some objective "truth". — get.dist.loci

<dl>

<dt>loci</dt>
<dd>Character string or number specifying the marker name.</dd>


<dt>estmap</dt>
<dd>Data frame in which has a column called "names" containing marker 
names and a column called "position" containing marker positions.</dd>


<dt>realmap</dt>
<dd>Data frame in which the first column contains marker names and 
the second column marker positions. Column names are not necessary.</dd>

</dl>

get.dist.loci: Calculates the distance of a marker from some objective "truth".

Description

Usage

Value

Arguments

Details