initializeCovarianceMatrices {AnaCoDa} | R Documentation |
Initialize Covariance Matrices
initializeCovarianceMatrices(parameter, genome, numMixtures, geneAssignment, init.csp.variance = 0.0025)
parameter |
A Parameter object that corresponds to one of the model types. Valid values are "ROC", "PA", and "FONSE". |
genome |
An object of type Genome necessary for the initialization of the Parameter object. |
numMixtures |
The number of mixture elements for the underlying mixture distribution (numMixtures > 0). |
geneAssignment |
A vector holding the initial mixture assignment for each gene. The vector length has to equal the number of genes in the genome. Valid values for the vector range from 1 to numMixtures. It is possible but not advised to leave a mixture element empty. |
init.csp.variance |
initial proposal variance for codon specific parameter, default is 0.0025. |
parameter Returns the Parameter argument, now modified with initialized mutation, selection, and covariance matrices.