compute_expectations.scOU | R Documentation |
compute_expectations.scOU
use the matrix formulation to compute the
expected values at all the nodes. Assumes a stationary root.
compute_expectations.scOU( phylo, root.state, shifts, alpha, U_tree = NULL, times_shared = NULL )
root.state |
(list): state of the root, with: random : random state (TRUE) or deterministic state (FALSE) value.root : if deterministic, value of the character at the root exp.root : if random, expectation of the character at the root var.root : if random, variance of the character at the root (pxp matrix) |
shifts |
(list) position and values of the shifts : edges : vector of the K id of edges where the shifts are values : matrix p x K of values of the shifts on the edges (one column = one shift) relativeTimes : vector of dimension K of relative time of the shift from the parent node of edges |
phylo: |
Input tree. |
paramSimu: array p x Nnode x 2 (BM). For each trait t, 1 <= t <= p, paramSimu[t, , ] has two columns, both containing the expected values for all the nodes.
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