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inab / trimal

A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0
https://trimal.readthedocs.io/
GNU General Public License v3.0
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Implement support for different genetic codes #12

Open scapella opened 10 years ago

scapella commented 10 years ago

Different genetic codes: Universal, mammalian mt, yeast mt, mold mt, invertebrate mt, cilate nuclear, echinoderm mt, euplotid mt, alternative yeast nuclear, ascidian mt.

When it comes to labeling stop codons, you need just a nuclear and mitochondrial code parameter.

julienrichardalbert commented 1 year ago

Hello, Has this been implemented? I am a new user and may have missed this option. Specifically I am trying to use a ciliate nuclear genetic code, where stop codons are exclusively TGA. Checking the docs I could only find the "codon table" dictionary in the selective_trimming_for_dNdS_analyses.based_neighbours.py script. Would editing that be sufficient to process different genetic codes? Thank you