make_mat_mappoly {mappoly} | R Documentation |
Subset recombination fraction matrices
Description
Get a subset of an object of class mappoly.rf.matrix
, i.e.
recombination fraction and LOD score matrices based in a
sequence of markers.
Usage
make_mat_mappoly(input.mat, input.seq)
Arguments
input.mat |
an object of class |
input.seq |
an object of class |
Value
an object of class mappoly.rf.matrix
,
which is a subset of 'input.mat'
.
See rf_list_to_matrix
for details
Author(s)
Marcelo Mollinari, mmollin@ncsu.edu
References
Mollinari, M., and Garcia, A. A. F. (2019) Linkage analysis and haplotype phasing in experimental autopolyploid populations with high ploidy level using hidden Markov models, _G3: Genes, Genomes, Genetics_. doi:10.1534/g3.119.400378
Examples
# sequence with 20 markers
mrk.seq <- make_seq_mappoly(hexafake, 1:20)
mrk.pairs <- est_pairwise_rf(input.seq = mrk.seq,
verbose = TRUE)
## Full recombination fraction matrix
mat <- rf_list_to_matrix(input.twopt = mrk.pairs)
plot(mat)
## Matrix subset
id <- make_seq_mappoly(hexafake, 1:10)
mat.sub <- make_mat_mappoly(mat, id)
plot(mat.sub)
[Package mappoly version 0.4.1 Index]