get_rf_from_list

an object of class <code>poly.est.two.pts.pairwise</code>

twopt

a list containing the linkage phase configuration. This
list can be found in any object of class
<code>two.pts.linkage.phases</code>, in x$config.to.test$'Conf-i',
where x is the object of class <code>two.pts.linkage.phases</code>
and i is one of the possible configurations.

ph.list

Get the recombination fraction for a sequence of markers given an
object of class <code>poly.est.two.pts.pairwise</code> and a list
containing the linkage phase configuration. This list can be found
in any object of class <code>two.pts.linkage.phases</code>, in
x$config.to.test$'Conf-i', where x is the object of class
<code>two.pts.linkage.phases</code> and i is one of the possible
configurations.

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 homologues. 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

Guilhereme Pereira

Augusto Garcia

Zhao-Bang Zeng

Katharine Preedy

Robert Gentleman

Ross Ihaka

R Foundation 

R-core 

get_rf_from_list function

Get the recombination fraction for a sequence of markers given an
object of class <code>poly.est.two.pts.pairwise</code> and a list
containing the linkage phase configuration. This list can be found
in any object of class <code>two.pts.linkage.phases</code>, in
x$config.to.test$'Conf-i', where x is the object of class
<code>two.pts.linkage.phases</code> and i is one of the possible
configurations. — get_rf_from_list

Get the recombination fraction for a sequence of markers given an
object of class <code>poly.est.two.pts.pairwise</code> and a list
containing the linkage phase configuration. This list can be found
in any object of class <code>two.pts.linkage.phases</code>, in
x$config.to.test$'Conf-i', where x is the object of class
<code>two.pts.linkage.phases</code> and i is one of the possible
configurations.

Description

Usage

Arguments

Value