drop_marker: Creates a new sequence by dropping markers.
In onemap: Construction of Genetic Maps in Experimental Crosses

drop_marker

R Documentation

Creates a new sequence by dropping markers.

Description

Creates a new sequence by dropping markers from a predetermined one.

Usage

drop_marker(input.seq, mrks)

Arguments

`input.seq`	an object of class `sequence`.
`mrks`	a vector containing the markers to be removed from the `sequence`.

Value

An 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 fractions between markers in the sequence. `-1` means that there are no estimated recombination fractions.
`seq.like`	log-likelihood of the corresponding linkage map.
`data.name`	name of the object of class `onemap` with the raw data.
`twopt`	name of the object of class `rf_2pts` with the 2-point analyses.

@author Marcelo Mollinari, mmollina@usp.br

Examples


data(onemap_example_out)
twopt <- rf_2pts(onemap_example_out)
all_mark <- make_seq(twopt,"all")
groups <- group(all_mark)
(LG1 <- make_seq(groups,1))
(LG.aug<-drop_marker(LG1, c(10,14)))

onemap documentation built on Nov. 26, 2022, 9:05 a.m.