Usage
imputed_traits(x, ...)
"imputed_traits"(x, trait = 1, save_all = FALSE, where = c("nodes", "tips"), what = c("imputed", "variances", "expectations"), method.selection = NULL, reconstructed_states = NULL, ...)
Arguments
trait
an integer giving the trait to extract. Default to 1.
save_all
if TRUE, arguments where and what are ignored, and
all the moments are kept for further extraction with the same function, precising
the argument reconstructed_states. Default to FALSE.
where
either "nodes" for ancestral state reconstruction, or "tips" for
data imputation.
what
the quantity to retrieve. Either the imputed traits (default), their
conditional variances, or the simple expectations under the selected process.
method.selection
(optional) the method selection to be used.
One of "LINselect", "DDSE", "Djump". Default to "LINselect".
reconstructed_states
if the reconstructed states have already been
computed (by a previous call of the function, with save_all=TRUE),
they can be passed on here (avoids multiple computaions of the E step).