getCAIweights {AnaCoDa} | R Documentation |
getCAIweights
returns the weights for the Codon Adaptation Index
based on a reference genome.
getCAIweights(referenceGenome, default.weight = 0.5)
referenceGenome |
A genome object initialized with |
default.weight |
Set default weight for any codon not observed in the reference genome |
Returns a named vector with the CAI weights for each codon
genome_file <- system.file("extdata", "genome.fasta", package = "AnaCoDa") ## reading genome referenceGenome <- initializeGenomeObject(file = genome_file) wi <- getCAIweights(referenceGenome)