add_marker function

Creates a new sequence by adding markers.

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

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.

Returns

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<-add_marker(LG1, c(4,7)))

See Also

drop_marker