getTrace: extracts an object of traces from a parameter object.

In AnaCoDa: Analysis of Codon Data under Stationarity using a Bayesian Framework

Description

extracts an object of traces from a parameter object.

Usage

getTrace(parameter)

Arguments

parameter

A Parameter object that corresponds to one of the model types.

Value

trace Returns an object of type Trace extracted from the given parameter object

Examples

 
genome_file <- system.file("extdata", "genome.fasta", package = "AnaCoDa")

genome <- initializeGenomeObject(file = genome_file)
sphi_init <- c(1,1)
numMixtures <- 2
geneAssignment <- c(rep(1,floor(length(genome)/2)),rep(2,ceiling(length(genome)/2)))
parameter <- initializeParameterObject(genome = genome, sphi = sphi_init, 
                                       num.mixtures = numMixtures, 
                                       gene.assignment = geneAssignment, 
                                       mixture.definition = "allUnique")

trace <- getTrace(parameter) # empty trace object since no MCMC was perfomed

AnaCoDa documentation built on Jan. 8, 2021, 2:37 a.m.