freq3x4.msa

<p>An object of type msa.  It is assumed to represent in-frame codons.
Length should be a multiple of 3.</p>

<p>Get codon frequencies based on 3x4 model</p>

Provides an R interface to the 'PHAST'(<http://compgen.cshl.edu/phast/>) software
(Phylogenetic Analysis with Space/Time Models).  It can be used for
many types of analysis in comparative and evolutionary genomics,
such as estimating models of evolution from sequence data, scoring
alignments for conservation or acceleration, and predicting
elements based on conservation or custom phylogenetic hidden Markov
models.  It can also perform many basic operations on multiple
sequence alignments and phylogenetic trees.

Ritika Ramani

freq3x4.msa: Get codon frequencies based on 3x4 model

Description

Usage

Arguments

Value