distributeMarkers

Create and attach identical (empty) marker objects, distributed along a set
of chromosomes.

A comprehensive collection of tools for creating,
manipulating and visualising pedigrees and genetic marker data.
Pedigrees can be read from text files or created on the fly with
built-in functions. A range of utilities enable modifications like
adding or removing individuals, breaking loops, and merging pedigrees.
An online tool for creating pedigrees interactively, based on
'pedtools', is available at <https://magnusdv.shinyapps.io/quickped>.
'pedtools' is the hub of the 'pedsuite', a collection of packages for
pedigree analysis. A detailed presentation of the 'pedsuite' is given
in the book 'Pedigree Analysis in R' (Vigeland, 2021,
ISBN:9780128244302).

Magnus Vigeland

pedtools

Creating and Working with Pedigrees and Marker Data

Magnus Dehli Vigeland

distributeMarkers function

<dl><dt>x</dt>
<dd>A ped object.</dd>
<dt>n</dt>
<dd>The total number of markers. Either this or <code>dist</code> must be NULL.</dd>
<dt>dist</dt>
<dd>A positive number; the distance (in megabases) between markers.</dd>
<dt>chromLen</dt>
<dd>A numeric vector indicating chromosome lengths (in Mb). By
default, the lengths of the human chromosomes 1-22 are used, as returned by
<code>sapply(ibdsim2::loadMap("decode"), ibdsim2::physRange)</code>.</dd>
<dt>alleles, afreq</dt>
<dd>Passed onto <code>marker()</code>.</dd>
<dt>prefix</dt>
<dd>A string used as prefix for marker names. Default: "M".</dd></dl>

Arguments

Distribute markers evenly along a set of chromosomes — distributeMarkers

<dl>

<dt>x</dt>
<dd>A ped object.</dd>


<dt>n</dt>
<dd>The total number of markers. Either this or <code>dist</code> must be NULL.</dd>


<dt>dist</dt>
<dd>A positive number; the distance (in megabases) between markers.</dd>


<dt>chromLen</dt>
<dd>A numeric vector indicating chromosome lengths (in Mb). By
default, the lengths of the human chromosomes 1-22 are used, as returned by
<code>sapply(ibdsim2::loadMap("decode"), ibdsim2::physRange)</code>.</dd>


<dt>alleles, afreq</dt>
<dd>Passed onto <code>marker()</code>.</dd>


<dt>prefix</dt>
<dd>A string used as prefix for marker names. Default: "M".</dd>

</dl>

distributeMarkers: Distribute markers evenly along a set of chromosomes

Description

Usage

Value

Arguments

Details

Examples