Transdecoder and transl_table=4 #179

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1. brianjohnhaas commented on Aug 22, 2023

   

   brianjohnhaas

   on Aug 22, 2023 via email

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   Hi, These are the supported codes: # --genetic_code | -G <string> genetic code (default: universal; see PerlDoc; options: Euplotes, Tetrahymena, Candida, Acetabularia)

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   On Tue, Aug 22, 2023 at 10:51 AM frsepulveda ***@***.***> wrote: Hi! I'm working in the annotation of a red algae which have "transl_table=4" genetic code. Can Transdecoder use this type of genetic code? I was looking in the manual but I can't find nothing. — Reply to this email directly, view it on GitHub <#179>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABZRKX7V3BQGRSJ5AXDSGSDXWTBO3ANCNFSM6AAAAAA32BVVIM> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

   -- -- Brian J. Haas The Broad Institute http://broadinstitute.org/~bhaas <http://broad.mit.edu/~bhaas>
2. brianjohnhaas commented on Aug 22, 2023

   

   brianjohnhaas

   on Aug 22, 2023 via email

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   Sorry, here's the full list of supported codes: Acetabularia Candida Ciliate Dasycladacean Euplotid Hexamita Mesodinium Mitochondrial-Ascidian Mitochondrial-Chlorophycean Mitochondrial-Echinoderm Mitochondrial-Flatworm Mitochondrial-Invertebrates Mitochondrial-Protozoan Mitochondrial-Pterobranchia Mitochondrial-Scenedesmus_obliquus Mitochondrial-Thraustochytrium Mitochondrial-Trematode Mitochondrial-Vertebrates Mitochondrial-Yeast Pachysolen_tannophilus Peritrich SR1_Gracilibacteria Tetrahymena Universal
3. permia commented on May 13, 2024

   

   permia

   on May 13, 2024

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   I think the Mitochondrial-Protozoan in Transdecoder is same as "4. The Mold, Protozoan, and Coelenterate Mitochondrial Code and the Mycoplasma/Spiroplasma Code (transl_table=4)". @frsepulveda