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Standard nucleotide and protein alphabets defined by IUPAC.

src/b/i/biopython-HEAD/Bio/motifs/mast.py   biopython(Download)
from __future__ import print_function
 
from Bio.Alphabet import IUPAC
from Bio.motifs import meme
 

src/b/i/biopython-HEAD/Bio/motifs/alignace.py   biopython(Download)
 
from Bio.motifs import Motif, Instances
from Bio.Alphabet import IUPAC
from Bio.Seq import Seq
 

src/b/i/biopython-HEAD/Bio/Motif/_Motif.py   biopython(Download)
from Bio.Seq import Seq
from Bio.SubsMat import FreqTable
from Bio.Alphabet import IUPAC
import math, random
 

src/b/i/biopython-HEAD/Bio/GenBank/__init__.py   biopython(Download)
    def record_end(self, content):
        """Clean up when we've finished the record.
        """
        from Bio import Alphabet
        from Bio.Alphabet import IUPAC

src/g/i/giraffe-2.0/src/giraffe/features.py   giraffe(Download)
from Bio.Alphabet import IUPAC, _verify_alphabet
from Bio.Seq import Seq
import re
import os
 

src/m/a/Mapp-0.1.0/mapp/utils/alignconverter.py   Mapp(Download)
import argparse
from Bio import AlignIO
from Bio.Alphabet import Gapped, IUPAC
 
 

src/s/e/seqmagick-0.5.0/seqmagick/subcommands/primer_trim.py   seqmagick(Download)
 
from Bio import Alphabet, SeqIO, pairwise2
from Bio.Alphabet import IUPAC
from Bio.Seq import Seq
 

src/b/i/bioscripts.convert-0.4/bioscripts/convert/defs.py   bioscripts.convert(Download)
 
from Bio import (Alphabet)
from Bio.Alphabet import (IUPAC)
from Bio.Data import (IUPACData)
 

src/s/e/seqmagick-HEAD/seqmagick/subcommands/primer_trim.py   seqmagick(Download)
 
from Bio import Alphabet, SeqIO, pairwise2
from Bio.Alphabet import IUPAC
from Bio.Seq import Seq
 

src/g/i/giraffe-2.0/src/hippo/models.py   giraffe(Download)
  def save(self, *args, **kwargs):
    from Bio.Alphabet import IUPAC
    if self.is_dna():
      alphabet = IUPAC.unambiguous_dna
    else:
  def __build_db(self, dna_or_protein):
    import os, tempfile, subprocess
    from Bio.Alphabet import IUPAC
    from giraffe.features import clean_sequence, Blast_Accession
 

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