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src/b/i/biopython-1.63/Bio/Alphabet/IUPAC.py   biopython(Download)
class IUPACAmbiguousDNA(Alphabet.DNAAlphabet):
    """Uppercase IUPAC ambiguous DNA."""
    letters = IUPACData.ambiguous_dna_letters
 
ambiguous_dna = IUPACAmbiguousDNA()
class ExtendedIUPACDNA(Alphabet.DNAAlphabet):
    """Extended IUPAC DNA alphabet.
 
    In addition to the standard letter codes GATC, this includes:
 

src/b/i/biopython-HEAD/Bio/Alphabet/IUPAC.py   biopython(Download)
class IUPACAmbiguousDNA(Alphabet.DNAAlphabet):
    """Uppercase IUPAC ambiguous DNA."""
    letters = IUPACData.ambiguous_dna_letters
 
ambiguous_dna = IUPACAmbiguousDNA()
class ExtendedIUPACDNA(Alphabet.DNAAlphabet):
    """Extended IUPAC DNA alphabet.
 
    In addition to the standard letter codes GATC, this includes:
 

src/v/d/vdj-HEAD/pipeline.py   vdj(Download)
 
from Bio.Seq import Seq
from Bio.Alphabet import DNAAlphabet
 
import vdj

src/b/i/biopython-HEAD/Tests/test_seq.py   biopython(Download)
for nucleotide_seq in [misc_stops, Seq.Seq(misc_stops),
                       Seq.Seq(misc_stops, Alphabet.generic_nucleotide),
                       Seq.Seq(misc_stops, Alphabet.DNAAlphabet()),
                       Seq.Seq(misc_stops, IUPAC.unambiguous_dna)]:
    assert "***RR" == str(Seq.translate(nucleotide_seq))

src/b/i/biopython-1.63/Tests/test_seq.py   biopython(Download)
for nucleotide_seq in [misc_stops, Seq.Seq(misc_stops),
                       Seq.Seq(misc_stops, Alphabet.generic_nucleotide),
                       Seq.Seq(misc_stops, Alphabet.DNAAlphabet()),
                       Seq.Seq(misc_stops, IUPAC.unambiguous_dna)]:
    assert "***RR" == str(Seq.translate(nucleotide_seq))