Maximum Likelihood and Markov chain Monte Carlo methods for Pedigree Reconstruction, Analysis and Simulation.


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Documentation for package `MasterBayes' version 1.0

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beta.loglik Log-Likelihood of Beta
extractA Allele Frequencies
fillX.G Mendelian Transition Probalities
GdataPed GdataPed Object
genotype.list Genotype Objects for all Loci
getXlist Design Matrices for the Multinomial Log-Linear Model
is.GdataPed GdataPed Object
is.PdataPed PdataPed Object
is.priorPed priorPed Object
is.startPed startPed Object
is.tunePed tunePed Object
legalG Legal Genotype Configurations
MasterBayes Maximum Likelihood and Markov chain Monte Carlo methods for Pedigree Reconstruction, Analysis and Simulation.
MCMCped Markov chain Monte Carlo Methods for Pedigree Reconstruction and Analysis
mismatches Parent-Offspring Genotype Mismatches
MLE.beta Maximum Likelihood Estimation of Beta
MLE.ped Maximum Likelihood Estimation of the Pedigree
MLE.popsize Maximum Likelihood Estimation of the Unsampled Population Size
modeP Posterior Mode of Parents
order.ped Orders a Pedigree
PdataPed PdataPed Object
popsize.loglik Log-Likelihood of Unsampled Population Size
priorPed priorPed Object
reordXlist Reorders Design Matrices
simgenotypes Genotype and Genotyping Error Simulation
simpedigree Simulates a Pedigree given a Log-Linear Model
startPed startPed Object
tunePed tunePed Object
varPed Transforms Variables for a Multinomial Log-Linear Model
WarblerG Seychelles Warbler Genotypes
WarblerP Seychelles Warbler Phenotypes