add_redundants function

Add the redundant markers removed by create_data_bins function

add_redundants(sequence, onemap.obj, bins)

Arguments

• sequence: object of class sequence
• onemap.obj: object of class onemap.obj before redundant markers were removed
• bins: object of class onemap_bin

Returns

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.

See Also

find_bins

Author(s)

Cristiane Taniguti, chtaniguti@tamu.edu