CreateAADistanceMatrix

CreateNucleotideMutationMatrix

CreateCodonMutationMatrix

CompareVectors

GetPairwiseProteinFixationProbabilityArbitraryLength

GetPairwiseProteinFixationProbabilitySingleSite

TranslateCodon

GetProteinProteinDistance

CreateCodonFixationRateMatrix

CreateAAFixationMatrix

GetLikelihoodSAC_AAForSingleCharGivenOptimum

<p>These are functions used internally which will generally not be called by the user.</p>

internal

Sets up and executes a SelAC model (Selection on Amino acids and codons) for testing the presence of selection in amino acid or codon among a set of genes on a fixed phylogeny. Beaulieu et al (2019) <doi:10.1093/molbev/msy222>.

Jeremy Beaulieu

selac

Selection Models for Amino Acid and/or Codon Evolution

JJ Chai

Mike Gilchrist

Cedric Landerer

Graham Derryberry

Brian O'Meara

internal function

Internal functions — internal

Internal functions

internal: Internal functions

Description

Arguments