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onemap (version 3.0.0)

add_redundants: Add the redundant markers removed by create_data_bins function

Description

Add the redundant markers removed by create_data_bins function

Usage

add_redundants(sequence, onemap.obj, bins)

Value

New sequence object of class sequence, which is a list containing the following components:

seq.num

a vector containing the (ordered) indices of markers in the sequence, according to the input file.

seq.phases

a vector with the linkage phases between markers in the sequence, in corresponding positions. -1 means that there are no defined linkage phases.

seq.rf

a vector with the recombination frequencies between markers in the sequence. -1 means that there are no estimated recombination frequencies.

seq.like

log-likelihood of the corresponding linkage map.

data.name

object of class onemap with the raw data.

twopt

object of class rf_2pts with the 2-point analyses.

Arguments

sequence

object of class sequence

onemap.obj

object of class onemap.obj before redundant markers were removed

bins

object of class onemap_bin

Author

Cristiane Taniguti, chtaniguti@tamu.edu

See Also

find_bins