drop.marker: Creates a new sequence by dropping markers.

In bschiffthaler/BatchMap: Software for the Creation of High Density Linkage Maps in Outcrossing Species

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 outcross with the raw data.
twopt	name of the object of class rf.2pts with the 2-point analyses.

@author Marcelo Mollinari, [e-mail]

See Also

add.marker

Examples

data(example.out)
twopt <- rf.2pts(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)))

bschiffthaler/BatchMap documentation built on Dec. 16, 2019, 2:22 a.m.