uniformMap

Create a uniform recombination map of a given length.

Simulation of segments shared identical-by-descent (IBD) by
pedigree members. Using sex specific recombination rates along the
human genome (Halldorsson et al. (2019)
<doi:10.1126/science.aau1043>), phased chromosomes are simulated for
all pedigree members. Applications include calculation of realised
relatedness coefficients and IBD segment distributions. 'ibdsim2' is
part of the 'pedsuite' collection of packages for pedigree analysis.
A detailed presentation of the 'pedsuite', including a separate
chapter on 'ibdsim2', is available in the book 'Pedigree analysis in
R' (Vigeland, 2021, ISBN:9780128244302). A 'Shiny' app for visualising
and comparing IBD distributions is available at
<https://magnusdv.shinyapps.io/ibdsim2-shiny/>.

Magnus Vigeland

ibdsim2

Simulation of Chromosomal Regions Shared by Family Members

Magnus Dehli Vigeland

uniformMap function

<dl><dt>Mb</dt>
<dd>Map length in megabases.</dd>
<dt>cM</dt>
<dd>Map length in centiMorgan.</dd>
<dt>M</dt>
<dd>Map length in Morgan.</dd>
<dt>cmPerMb</dt>
<dd>A positive number; the cM/Mb ratio.</dd>
<dt>chrom</dt>
<dd>A chromosome label, which may be any string. The values "X" and
"23" have a special meaning, both resulting in the <code>Xchrom</code> attribute being
set to TRUE.</dd></dl>

Arguments

Uniform recombination maps — uniformMap

<dl>

<dt>Mb</dt>
<dd>Map length in megabases.</dd>


<dt>cM</dt>
<dd>Map length in centiMorgan.</dd>


<dt>M</dt>
<dd>Map length in Morgan.</dd>


<dt>cmPerMb</dt>
<dd>A positive number; the cM/Mb ratio.</dd>


<dt>chrom</dt>
<dd>A chromosome label, which may be any string. The values "X" and
"23" have a special meaning, both resulting in the <code>Xchrom</code> attribute being
set to TRUE.</dd>

</dl>

uniformMap: Uniform recombination maps

Description

Usage

Value

Arguments

See Also

Examples