compute_tree_correlations_matrix.scOU: Matrix of tree-induced correlations for the scOU

In pbastide/PhylogeneticEM: Automatic Shift Detection using a Phylogenetic EM

Matrix of tree-induced correlations for the scOU

Description

compute_tree_correlations_matrix.scOU computes the (n+m)x(m+n) matrix of correlations induced by the tree. It takes two cases in consideration: root fixed, or root in stationary state.

Usage

compute_tree_correlations_matrix.scOU(
  times_shared,
  distances_phylo,
  params_old,
  ...
)

Arguments

times_shared	times of shared ancestry of all nodes and tips, result of function compute_times_ca
distances_phylo	(matrix) : phylogenetic distance, result of function compute_dist_phy
params_old	(list) : old parameters to be used in the E step

Value

matrix of variance covariance for the scOU

pbastide/PhylogeneticEM documentation built on Feb. 12, 2024, 1:27 a.m.