extract.variance_covariance {PhylogeneticEM}R Documentation

Extract sub-matrices of variance.

Description

extract.variance_covariance return the adequate sub-matrix.

Usage

## S3 method for class 'variance_covariance'
extract(struct, what = c("YY", "YZ", "ZZ"),
  masque_data = c(rep(TRUE, attr(struct, "ntaxa") * attr(struct, "p_dim")),
  rep(FALSE, (dim(struct)[1] - attr(struct, "ntaxa")) * attr(struct, "p_dim"))))

Arguments

struct

structural matrix of size (ntaxa+nNode)*p, result of function compute_variance_covariance

what:

sub-matrix to be extracted: "YY" : sub-matrix of tips (p*ntaxa first lines and columns) "YZ" : sub matrix tips x nodes (p*nNodes last rows and p*ntaxa first columns) "ZZ" : sub matrix of nodes (p*nNodes last rows and columns)

miss;

missing values of Y_data

Value

sub-matrix of variance covariance.

[Package PhylogeneticEM version 1.1.0 Index]