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src/c/o/cogent-1.5.3/cogent/app/infernal.py   cogent(Download)
from cogent.parse.infernal import CmsearchParser
from cogent.core.moltype import DNA, RNA
from cogent.core.alignment import SequenceCollection, Alignment, DataError
from cogent.format.stockholm import stockholm_from_alignment
from cogent.struct.rna2d import ViennaStructure, wuss_to_vienna

src/p/y/pycogent-HEAD/cogent/app/infernal.py   pycogent(Download)
from cogent.parse.infernal import CmsearchParser
from cogent.core.moltype import DNA, RNA
from cogent.core.alignment import SequenceCollection, Alignment, DataError
from cogent.format.stockholm import stockholm_from_alignment
from cogent.struct.rna2d import ViennaStructure, wuss_to_vienna

src/c/o/cogent-1.5.3/cogent/parse/stockholm.py   cogent(Download)
from cogent.struct.rna2d import WussStructure
from cogent.util.transform import trans_all,keep_chars
from cogent.core.alignment import Alignment, DataError, SequenceCollection
from collections import defaultdict
 

src/c/o/cogent-1.5.3/cogent/parse/rfam.py   cogent(Download)
from cogent.struct.rna2d import WussStructure
from cogent.util.transform import trans_all,keep_chars
from cogent.core.alignment import Alignment, DataError, SequenceCollection
 
__author__ = "Sandra Smit and Greg Caporaso"

src/p/y/pycogent-HEAD/cogent/parse/stockholm.py   pycogent(Download)
from cogent.struct.rna2d import WussStructure
from cogent.util.transform import trans_all,keep_chars
from cogent.core.alignment import Alignment, DataError, SequenceCollection
from collections import defaultdict
 

src/p/y/pycogent-HEAD/cogent/parse/rfam.py   pycogent(Download)
from cogent.struct.rna2d import WussStructure
from cogent.util.transform import trans_all,keep_chars
from cogent.core.alignment import Alignment, DataError, SequenceCollection
 
__author__ = "Sandra Smit and Greg Caporaso"

src/c/o/cogent-1.5.3/cogent/app/vienna_package.py   cogent(Download)
    MixedParameter,Parameters, _find_synonym, is_not_None
from cogent.struct.rna2d import ViennaStructure
from cogent.core.alignment import DataError
from cogent.parse.rnaalifold import MinimalRnaalifoldParser
from random import choice

src/p/y/pycogent-HEAD/cogent/app/vienna_package.py   pycogent(Download)
    MixedParameter,Parameters, _find_synonym, is_not_None
from cogent.struct.rna2d import ViennaStructure
from cogent.core.alignment import DataError
from cogent.parse.rnaalifold import MinimalRnaalifoldParser
from random import choice

src/c/o/cogent-1.5.3/tests/test_core/test_alignment.py   cogent(Download)
from cogent.struct.rna2d import ViennaStructure
 
from cogent.core.alignment import SequenceCollection, \
    make_gap_filter, coerce_to_string, \
    seqs_from_array, seqs_from_model_seqs, seqs_from_generic, seqs_from_fasta, \

src/p/y/pycogent-HEAD/tests/test_core/test_alignment.py   pycogent(Download)
from cogent.struct.rna2d import ViennaStructure
 
from cogent.core.alignment import SequenceCollection, \
    make_gap_filter, coerce_to_string, \
    seqs_from_array, seqs_from_model_seqs, seqs_from_generic, seqs_from_fasta, \

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