codondiffR | codondiffR: inter-taxon comparison of codon usage |
codonFreq | Create new objects of class 'codonFreq'. |
codonFreq-class | S4 class for storing relative codon frequencies in... |
extract-codonFreq | Methods for subsetting a codonFreq object |
LDA | Discriminant analysis of codon usage by taxon |
MCUFD | Calculate mean codon usage similarity. |
MCUFD_enrich-list-method | MCUFD enrichment testing |
normalise | Normalise the codon frequencies in a codonFreq object by... |
PCA | PCA of codon usage by taxon |
plot-codonFreq | Plot the relative frequencies of codons in a 'codonFreq'... |
plots | LDA plots |
predict_PCA | PCA plots |
readSeq | Read nucleotide sequences from a file. |
show-codonFreq | Display the data in a 'codonFreq' object. |
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