add.marker: Creates a new sequence by adding markers.

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

Description

Creates a new sequence by adding markers from a predetermined one. The markers are added in the end of the sequence.

Usage

add.marker(input.seq, mrks)

Arguments

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

drop.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<-add.marker(LG1, c(4,7)))

BatchMap documentation built on May 2, 2019, 3:45 p.m.