mappoly (version 0.4.1)

elim_redundant: Eliminate redundant markers

Description

Eliminate markers with identical dosage information for all individuals.

Usage

elim_redundant(input.seq, data = NULL)

Value

An object of class mappoly.unique.seq which is a list containing the following components:

unique.seq

an object of class mappoly.sequence with the redundant markers removed

kept

a vector containing the name of the informative markers

eliminated

a vector containing the name of the non-informative (eliminated) markers

Arguments

input.seq

an object of class mappoly.sequence

data

name of the dataset that contains sequence markers (optional, default = NULL)

Author

Marcelo Mollinari, , with minor modifications by Gabriel Gesteira,

References

Mollinari, M., and Garcia, A. A. F. (2019) Linkage analysis and haplotype phasing in experimental autopolyploid populations with high ploidy level using hidden Markov models, _G3: Genes, Genomes, Genetics_. tools:::Rd_expr_doi("10.1534/g3.119.400378")

Examples

    all.mrk <- make_seq_mappoly(hexafake, 'all')
    red.mrk <- elim_redundant(all.mrk)
    plot(red.mrk)
    unique.mrks <- make_seq_mappoly(red.mrk)