Ambiguous sequence Translation
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
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
DNA to peptide translation and adding to csv file
written by Sara
-
Trimming/masking ambiguous codon positions from nucleotide sequences
written by john.soghigian •
-
Extracting homologous proteins from genome ( blat or exonerate)
written by ricardoguerreiro2121
-
How to deal with gaps during translation with biopython
written by sunyeping •
-
Take out the GENES from DNA sequence while using FRMAES.
written by abdullahqamer92 •
-
How to find protein motif in DNA sequence
written by Benn
-
Why are some codons containing uncertainties wrongly translated in BioPython?
written by Palming •
-
How To Map Dna Sequence Changes Or Mutations To Protein Sequence?
written by Nims •
-
Error Translating Genbank Cds Using Biopython
written by Tim
-
Biopython Translation Error?
written by Mark Evans •
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.