draw_phases

Plot the linkage phase configuration given a list of homologous chromosomes

internal

Construction of genetic maps in autopolyploid full-sib populations.
Uses pairwise recombination fraction estimation as the first
source of information to sequentially position allelic variants
in specific homologous chromosomes. For situations where pairwise
analysis has limited power, the algorithm relies on the multilocus
likelihood obtained through a hidden Markov model (HMM).
For more detail, please see Mollinari and Garcia (2019)
<doi:10.1534/g3.119.400378> and Mollinari et al. (2020)
<doi:10.1534/g3.119.400620>.

Marcelo Mollinari

mappoly

Genetic Linkage Maps in Autopolyploids

Gabriel Gesteira

Cristiane Taniguti

Jeekin Lau

Oscar Riera-Lizarazu

Guilhereme Pereira

Augusto Garcia

Zhao-Bang Zeng

Katharine Preedy

Robert Gentleman

Ross Ihaka

R Foundation 

R-core 

draw_phases function

<dl><dt>ploidy</dt>
<dd>ploidy level</dd>
<dt>hom.allele.p</dt>
<dd>a <code>list</code> of vectors containing linkage
phase configuration for parent P. Each vector contains the
numbers of the homologous chromosomes in which the alleles are
located.</dd>
<dt>hom.allele.q</dt>
<dd>same for parent Q</dd></dl>

Arguments

Plot the linkage phase configuration given a list of homologous chromosomes — draw_phases

<dl>

<dt>ploidy</dt>
<dd>ploidy level</dd>


<dt>hom.allele.p</dt>
<dd>a <code>list</code> of vectors containing linkage
phase configuration for parent P. Each vector contains the
numbers of the homologous chromosomes in which the alleles are
located.</dd>


<dt>hom.allele.q</dt>
<dd>same for parent Q</dd>

</dl>

Plot the linkage phase configuration given a list of homologous chromosomes

draw_phases: Plot the linkage phase configuration given a list of homologous chromosomes

Description

Usage

Arguments