find_bins function

Allocate markers into bins

Function to allocate markers with redundant information into bins. Within each bin, the pairwise recombination fraction between markers is zero.

find_bins(input.obj, exact = TRUE)

Arguments

• input.obj: an object of class onemap.
• exact: logical. If TRUE, it only allocates markers with the exact same information into bins, including missing data; if FALSE, missing data are not considered when allocating markers. In the latter case, the marker with the lowest amount of missing data is taken as the representative marker on that bin.

Returns

An object of class onemap_bin, which is a list containing the following components: - bins: a list containing the bins. Each element of the list is a table whose lines indicate the name of the marker, the bin in which that particular marker was allocated and the percentage of missing data. The name of each element of the list corresponds to the marker with the lower amount of missing data among those on the bin- n.mar: total number of markers.

• n.ind: number individuals - exact.search: logical; indicates if the search was performed with the argument exact=TRUE or exact=FALSE

Examples

data("vcf_example_out")
  (bins<-find_bins(vcf_example_out, exact=FALSE))

See Also

create_data_bins

Author(s)

Marcelo Mollinari, mmollina@usp.br