Closed ArtPoon closed 9 years ago
Kamphir:simulate()
: For each target tree, need to simulate replicate trees with matching numbers of tips, tip heights, and tree height. Needs to return a list of lists containing Tree objects.Kamphir:compute()
needs to iterate over the list of lists of simulated trees returned by simulate
and calculate kernel scores for each target tree.evaluate()
and pass tree-specific objects so that we hardly need to change simulate
or compute
.
Complication: tree height parameter
t_end
will have to be fixed for each target tree in the list. i.e., not treated as a parameter to be updated by the proposal.