R: Filter markers based on 2pts distance

filter_2pts_gaps {onemap}

R Documentation

Filter markers based on 2pts distance

Filter markers based on 2pts distance

filter_2pts_gaps(input.seq, max.gap = 10)

`input.seq`	object of class sequence with ordered markers
`max.gap`	maximum gap measured in kosambi centimorgans allowed between adjacent markers. Markers that presents the defined distance between both adjacent neighbors will be removed.

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.

Cristiane Taniguti, chtaniguti@tamu.edu

[Package onemap version 3.0.0 Index]