PhyloCSF Maintainer: Mike Lin Introduction PhyloCSF is a method to determine whether a multi-species nucleotide sequence alignment is likely to represent a protein-coding region. PhyloCSF does not rely ...

The "Omega Test" is a simplified operational mode of PhyloCSF that requires fewer pre-computed parameters about the phylogeny under analysis. In particular, while PhyloCSF requires both a phylogenetic ...

--frames=-3 mode Different alignment formats: PHYLIP, SeqXML Separately report the portion of the likelihood ratio arising from ancestral sequence prior Option to automatically create sub-model for only ...