Ambiguous sequence Translation
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6 days ago
usr2 • 0

I am translating a DNA sequence containing Ns with biopython Seq(seq).translate(). Biopython assigns an X to de translated sequence whenever the codon is ambiguous, but I would like to capture which aa's are possible given the codon context of the N, instead of X, that represents all possibilities. Do you know about any tool or way to do this?

many thanks

biopython translation • 89 views
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Can you provide some examples of the desired translations?

In SEDA we have also implemented a translate operation (https://www.sing-group.org/seda/manual/operations.html#translate) but I am not sure if it can do what you want. We can implement it if it is interesting.

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