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src/b/i/biopython-1.63/Doc/examples/clustal_run.py   biopython(Download)
    'C': .2}
 
freq_table_info = FreqTable.FreqTable(expect_freq, FreqTable.FREQ,
                                      IUPAC.unambiguous_dna)
 

src/b/i/biopython-HEAD/Doc/examples/clustal_run.py   biopython(Download)
    'C': .2}
 
freq_table_info = FreqTable.FreqTable(expect_freq, FreqTable.FREQ,
                                      IUPAC.unambiguous_dna)
 

src/b/i/biopython-1.63/Bio/Motif/_Motif.py   biopython(Download)
                    except KeyError: #we need to ignore non-alphabet letters
                        pass
            self._pwm.append(FreqTable.FreqTable(dict, FreqTable.COUNT, self.alphabet)) 
        self._pwm_is_current=1
        return self._pwm

src/b/i/biopython-1.63/Bio/Align/AlignInfo.py   biopython(Download)
    filename = "../../Tests/GFF/multi.fna"
    format = "fasta"
    expected = FreqTable.FreqTable({"A":0.25,"G":0.25,"T":0.25,"C":0.25},
                                   FreqTable.FREQ,
                                   IUPAC.unambiguous_dna)

src/b/i/biopython-HEAD/Bio/Motif/_Motif.py   biopython(Download)
                    except KeyError: #we need to ignore non-alphabet letters
                        pass
            self._pwm.append(FreqTable.FreqTable(dict, FreqTable.COUNT, self.alphabet)) 
        self._pwm_is_current=1
        return self._pwm

src/b/i/biopython-HEAD/Bio/Align/AlignInfo.py   biopython(Download)
    filename = "../../Tests/GFF/multi.fna"
    format = "fasta"
    expected = FreqTable.FreqTable({"A":0.25,"G":0.25,"T":0.25,"C":0.25},
                                   FreqTable.FREQ,
                                   IUPAC.unambiguous_dna)

src/w/l/wLib-1.1.0/external/Motif/_Motif.py   wLib(Download)
                    except KeyError: #we need to ignore non-alphabet letters
                        pass
            self._pwm.append(FreqTable.FreqTable(dict,FreqTable.COUNT,self.alphabet)) 
        self._pwm_is_current=1
        return self._pwm

src/b/i/biopython-1.63/Bio/SubsMat/__init__.py   biopython(Download)
            exp_freq_table[i[0]] += obs_freq_mat[i] / 2.
            exp_freq_table[i[1]] += obs_freq_mat[i] / 2.
    return FreqTable.FreqTable(exp_freq_table, FreqTable.FREQ)
 
 

src/b/i/biopython-HEAD/Bio/SubsMat/__init__.py   biopython(Download)
            exp_freq_table[i[0]] += obs_freq_mat[i] / 2.
            exp_freq_table[i[1]] += obs_freq_mat[i] / 2.
    return FreqTable.FreqTable(exp_freq_table, FreqTable.FREQ)
 
 

src/b/i/biopython-1.63/Tests/test_align.py   biopython(Download)
          'T' : 0.25}
 
e_freq_table = FreqTable.FreqTable(e_freq, FreqTable.FREQ,
                                   IUPAC.unambiguous_dna)
 

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