get_ph_conf_ret_sh

Given a homology group in matrix form, it returns the number shared
homologous for all pairs of markers in this group

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 

get_ph_conf_ret_sh function

<dl><dt>M</dt>
<dd>matrix whose columns represent homologous chromosomes and
the rows represent markers</dd></dl>

Arguments

Given a homology group in matrix form, it returns the number shared
homologous for all pairs of markers in this group — get_ph_conf_ret_sh

<dl>

<dt>M</dt>
<dd>matrix whose columns represent homologous chromosomes and
the rows represent markers</dd>

</dl>

Given a homology group in matrix form, it returns the number shared
homologous for all pairs of markers in this group

get_ph_conf_ret_sh: Given a homology group in matrix form, it returns the number shared homologous for all pairs of markers in this group

Description

Usage

Value

Arguments