Mmm, it is something we have discussed in the past, though not recently. It probably should be there.
G.
Hello David,
I’m afraid this is not currently supported in Jalview. The ‘standard’ translation is hard-coded (in ResidueProperties.codonHash2) in such a way that it is not simple to use an alternative table (e.g. by injecting a script).
I had a look for an existing feature request for this but (to my surprise) didn’t find one. Will check with the team whether this is already on the to-do list.
Regards,
Mungo
Mungo Carstairs
Jalview Computational Scientist
The Barton Group
Division of Computational Biology
School of Life Sciences
University of Dundee, Dundee, Scotland, UK
www.jalview.org
www.compbio.dundee.ac.uk
g.m.carstairs@dundee.ac.uk
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From: jalview-discuss-bounces@jalview.org jalview-discuss-bounces@jalview.org on behalf of David Martin (Staff) d.m.a.martin@dundee.ac.uk
Sent: 10 July 2017 16:04:48
To: jalview-discuss@jalview.org
Subject: [Jalview-discuss] Alternative translation tables for cDNA → Protein
Is it possible to support alternative translation tables? Translating cDNA for invertebrate mitochondria results in protein sequence errors.
…d
Dr David M A Martin PhD FRSB
Senior Lecturer in Bioinformatics
School of Life Sciences, University of Dundee
+44(0)1382 388704 | d.m.a.martin@dundee.ac.uk
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The University of Dundee is a registered Scottish Charity, No: SC015096
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On 17/07/2017 09:20, Mungo Carstairs (Staff) wrote:
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Geoff Barton | Professor of Bioinformatics | Head of Division of Computational Biology
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