get_dosage_type

Analyzes a genomic sequence object to categorize markers based on their dosage type.
The function calculates the dosage type by comparing the dosage of two parental sequences
(p1 and p2) against the ploidy level. It categorizes markers into simplex for parent 1 (simplex.p),
simplex for parent 2 (simplex.q), double simplex (ds), and multiplex based on the calculated dosages.

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_dosage_type function

<dl><dt>input.seq</dt>
<dd>An object of class <code>"mappoly.sequence"</code>:</dd></dl>

Arguments

Get Dosage Type in a Sequence — get_dosage_type

<dl>

<dt>input.seq</dt>
<dd>An object of class <code>"mappoly.sequence"</code>:</dd>

</dl>

Get Dosage Type in a Sequence

get_dosage_type: Get Dosage Type in a Sequence

Description

Usage

Value

Arguments