datelife_result_sdm_phylo {datelife} | R Documentation |
Reconstruct a supertree from a datelifeResult
object using the Super Distance Matrix (SDM) method.
Description
Reconstruct a supertree from a datelifeResult
object using the Super Distance Matrix (SDM) method.
Usage
datelife_result_sdm_phylo(datelife_result, weighting = "flat", ...)
Arguments
datelife_result |
A |
weighting |
A character vector indicating how much weight to give to each
tree in
Defaults to |
... |
Arguments passed on to
|
Details
Chronograms given as input in datelife_result
are summarized with the Super Distance
Matrix (SDM) method described in Criscuolo et al. (2006) doi:10.1080/10635150600969872,
implemented with the function ape::SDM()
. The resulting summary SDM is
clustered with summary_matrix_to_phylo()
.
Value
A supertree with branch lengths proportional to time, obtained by
summarizing individual chronograms given as input in datelife_result
.
It is returned as an object of class datelifeSDM
, which is a phylo
object
with an additional $data
element storing the input chronograms as a
datelifeResult
object, and a $citation
element containing
citations of studies from input chronograms.
References
Criscuolo A, Berry V, Douzery EJ, Gascuel O. (2006) "SDM: a fast distance-based approach for (super) tree building in phylogenomics" doi:10.1080/10635150600969872.