getLinkedPairs

This function returns a "maximal" set of disjoint pairs of linked markers,
given a genetic marker map and a subset of the markers included in the map.
The pairs are identified in a greedy manner, successively choosing the
closest markers on each chromosome.

A 'shiny' application for forensic kinship testing, based on
the 'pedsuite' R packages. 'KLINK' is closely aligned with the (non-R)
software 'Familias' and 'FamLink', but offers several unique features,
including visualisations and automated report generation. The
calculation of likelihood ratios supports pairs of linked markers, and
all common mutation models.

Magnus Vigeland

KLINK

Kinship Analysis with Linked Markers

Magnus Dehli Vigeland

getLinkedPairs function

<dl><dt>markers</dt>
<dd>A character vector containing marker names.</dd>
<dt>linkageMap</dt>
<dd>A data frame with columns including <code>Marker</code>, <code>Chrom</code> and
<code>PosCM</code>.</dd>
<dt>maxdist</dt>
<dd>A positive number indicating the maximum linkage distance (in
cM). Markers further apart than this are considered unlinked.</dd></dl>

Arguments

Identify linked marker pairs — getLinkedPairs

<dl>

<dt>markers</dt>
<dd>A character vector containing marker names.</dd>


<dt>linkageMap</dt>
<dd>A data frame with columns including <code>Marker</code>, <code>Chrom</code> and
<code>PosCM</code>.</dd>


<dt>maxdist</dt>
<dd>A positive number indicating the maximum linkage distance (in
cM). Markers further apart than this are considered unlinked.</dd>

</dl>

getLinkedPairs: Identify linked marker pairs

Description

Usage

Value

Arguments

Examples