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A
aa1
(in
Bio.PDB.Polypeptide
)
add_text_dict_handler()
(in
Bio.StdHandler
)
ANY_ALL
(in
Martel.msre_constants
)
aa3
(in
Bio.PDB.Polypeptide
)
add_text_handler()
(in
Bio.StdHandler
)
any_float
(in
Bio.Emboss.primer3_format
)
abi_thumbprint()
(in
_RecordConsumer
)
add_to_logodds()
(in
MEMEMotif
)
any_integer
(in
Bio.Emboss.primer3_format
)
abs()
(in
FSSPAlignDict
)
add_to_logodds()
(in
_MEMEConsumer
)
any_space
(in
Bio.Emboss.primer3_format
)
abs_res_num
(in
align
)
add_to_pssm()
(in
MEMEMotif
)
AnyBut()
(in
Martel
)
absolute
(in
Bio.Affy.CelFile
)
add_to_pssm()
(in
_MEMEConsumer
)
AnyEol
absolute
(in
Bio.distance
)
add_url()
(in
NetCatch
)
apad
(in
Bio.EUtils.DTDs.LinkOut
)
AbsoluteLocation
(in
Bio.GenBank.LocationParser
)
add_value_handler()
(in
Bio.StdHandler
)
append()
(in
Chain
)
Abstract
(in
Bio.GA.Selection
)
addnode()
(in
POMDocument
)
append()
(in
ElementNode
)
abstract()
(in
_RecordConsumer
)
address()
(in
_RecordConsumer
)
append()
(in
SourceFile
)
abstract_author()
(in
_RecordConsumer
)
addRule()
(in
GenericParser
)
append()
(in
SeqMap
)
AbstractAtomPropertyMap
(in
Bio.PDB.AbstractPropertyMap
)
af
(in
Bio.Sequencing.Ace
)
append()
(in
MutableSeq
)
AbstractCommandline
(in
Bio.Application
)
af()
(in
_RecordConsumer
)
append()
(in
Alignment
)
AbstractConsumer
(in
Bio.ParserSupport
)
affine_penalty
(in
Bio.pairwise2
)
append()
(in
AlignmentColumn
)
AbstractCut
(in
Bio.Restriction.Restriction
)
Affy
(in
Bio
)
append()
(in
SubPattern
)
AbstractDPAlgorithms
(in
Bio.HMM.DynamicProgramming
)
AfterPosition
(in
Bio.SeqFeature
)
append_sets()
(in
Nexus
)
AbstractLayer
(in
Bio.NeuralNetwork.BackPropagation.Layer
)
aggregate()
(in
FeatureQuery
)
append_to()
(in
AppendableListDictionary
)
AbstractParser
(in
Bio.ParserSupport
)
Algorithm
(in
Bio.Search
)
AppendableListDictionary
AbstractPosition
(in
Bio.SeqFeature
)
Align
(in
Bio
)
Application
(in
Bio
)
AbstractPropertyMap
(in
Bio.PDB
)
align
(in
Bio.FSSP.fssp_rec
)
application_name()
(in
Bio.Std
)
AbstractPropertyMap
(in
Bio.PDB.AbstractPropertyMap
)
align
(in
Bio.pairwise2
)
application_version()
(in
Bio.Std
)
AbstractResiduePropertyMap
(in
Bio.PDB.AbstractPropertyMap
)
align()
(in
_HSPConsumer
)
ApplicationResult
(in
Bio.Application
)
AbstractSelection
(in
Bio.GA.Selection.Abstract
)
align()
(in
Bio.Wise
)
Applications
(in
Bio.AlignAce
)
AbstractTrainer
(in
Bio.HMM.Trainer
)
align()
(in
Bio.Wise.dnal
)
Applications
(in
Bio.Blast
)
AC
(in
Martel.test.testformats.swissprot38
)
align()
(in
Bio.Wise.psw
)
Applications
(in
Bio.Emboss
)
AC_block
(in
Martel.test.testformats.swissprot38
)
AlignAce
(in
Bio
)
apply()
(in
Superimposer
)
acc
(in
align
)
AlignAce()
(in
Bio.AlignAce.AlignAceStandalone
)
apply_on_multi_fasta()
(in
Bio.SeqUtils
)
accept_atom()
(in
ChainSelector
)
AlignAceCommandline
(in
Bio.AlignAce.Applications
)
approximate_fst()
(in
Bio.PopGen.FDist.Utils
)
accept_atom()
(in
Select
)
AlignAceConsumer
(in
Bio.AlignAce.Parser
)
arccos
(in
Bio.Affy.CelFile
)
accept_chain()
(in
ChainSelector
)
AlignAceParser
(in
Bio.AlignAce.Parser
)
arccos
(in
Bio.distance
)
accept_chain()
(in
Select
)
AlignAceScanner
(in
Bio.AlignAce.Scanner
)
arccosh
(in
Bio.Affy.CelFile
)
accept_model()
(in
ChainSelector
)
AlignAceStandalone
(in
Bio.AlignAce
)
arccosh
(in
Bio.distance
)
accept_model()
(in
Select
)
AlignInfo
(in
Bio.Align
)
arcsin
(in
Bio.Affy.CelFile
)
accept_residue()
(in
ChainSelector
)
AlignIO
(in
Bio
)
arcsin
(in
Bio.distance
)
accept_residue()
(in
Select
)
Alignment
(in
Bio.Align.Generic
)
arcsinh
(in
Bio.Affy.CelFile
)
accession()
(in
_FeatureConsumer
)
Alignment
(in
Bio.Blast.Record
)
arcsinh
(in
Bio.distance
)
accession()
(in
_RecordConsumer
)
Alignment
(in
Bio.Wise.psw
)
arctan
(in
Bio.Affy.CelFile
)
accession()
(in
_RecordConsumer
)
AlignmentColumn
(in
Bio.Wise.psw
)
arctan
(in
Bio.distance
)
accession()
(in
_RecordConsumer
)
AlignmentColumnFullException
(in
Bio.Wise.psw
)
arctan2
(in
Bio.Affy.CelFile
)
accession()
(in
_RecordConsumer
)
AlignmentHasDifferentLengthsError
(in
Bio.CAPS
)
arctan2
(in
Bio.distance
)
accession()
(in
_SequenceConsumer
)
AlignmentIterator
(in
Bio.AlignIO.Interfaces
)
arctanh
(in
Bio.Affy.CelFile
)
ACCREP
(in
Bio.SubsMat
)
alignments_rec
(in
Bio.FSSP
)
arctanh
(in
Bio.distance
)
Ace
(in
Bio.Sequencing
)
alignments_title
(in
Bio.FSSP
)
ArgsParser
ACEFileRecord
(in
Bio.Sequencing.Ace
)
AlignmentWriter
(in
Bio.AlignIO.Interfaces
)
aromaticity()
(in
ProteinAnalysis
)
AceIO
(in
Bio.SeqIO
)
all_get_indices()
(in
KDTree
)
as_string()
(in
RestrictionBatch
)
AceIterator()
(in
Bio.SeqIO.AceIO
)
all_get_radii()
(in
KDTree
)
asdict()
(in
Bio.listfns
)
ACEParser
(in
Bio.Sequencing.Ace
)
all_ids()
(in
Chain
)
Assert
acquire()
(in
SplitFDist
)
all_letters_sum()
(in
SeqMat
)
ASSERT
(in
Martel.msre_constants
)
acquire()
(in
DispatchHandler
)
all_pairs()
(in
Bio.Wise
)
Assert()
(in
Martel
)
acquire()
(in
Dispatcher
)
all_search()
(in
KDTree
)
ASSERT_NOT
(in
Martel.msre_constants
)
Adaptor
(in
BioSQL.BioSeqDatabase
)
all_suppliers()
(in
AbstractCut
)
AssertNot()
(in
Martel
)
add
(in
Bio.Affy.CelFile
)
all_unambiguous()
(in
Schema
)
Astral
(in
Bio.SCOP
)
add
(in
Bio.distance
)
AllEnzymes
(in
Bio.Restriction.Restriction
)
astralBibIds
(in
Bio.SCOP
)
add()
(in
ElementNode
)
allitems()
(in
OrderedMultiDict
)
astralEv_to_file
(in
Bio.SCOP
)
add()
(in
Location
)
allitems()
(in
UnorderedMultiDict
)
astralEv_to_sql
(in
Bio.SCOP
)
add()
(in
_ChromosomeComponent
)
allkeys()
(in
OrderedMultiDict
)
astralEvs
(in
Bio.SCOP
)
add()
(in
StepMatrix
)
allkeys()
(in
UnorderedMultiDict
)
Async
(in
Bio.PopGen
)
add()
(in
Chain
)
allow_all_transitions()
(in
MarkovModelBuilder
)
Async
(in
Bio.PopGen.Async
)
add()
(in
Entity
)
ALLOW_THREADS
(in
Bio.Affy.CelFile
)
Async
(in
Bio.PopGen.FDist
)
add()
(in
DisorderedResidue
)
ALLOW_THREADS
(in
Bio.distance
)
Async
(in
Bio.PopGen.SimCoal
)
add()
(in
Residue
)
allow_transition()
(in
MarkovModelBuilder
)
AT
(in
Martel.msre_constants
)
add()
(in
HashSet
)
allvalues()
(in
OrderedMultiDict
)
AT_BEGINNING
(in
Martel.msre_constants
)
add()
(in
RestrictionBatch
)
allvalues()
(in
UnorderedMultiDict
)
AT_BEGINNING_LINE
(in
Martel.msre_constants
)
add()
(in
MulticallEnd
)
Alphabet
(in
Bio
)
AT_BEGINNING_STRING
(in
Martel.msre_constants
)
add()
(in
MulticallStart
)
Alphabet
(in
Bio.Alphabet
)
AT_BOUNDARY
(in
Martel.msre_constants
)
add_align_list()
(in
FSSPAlignRec
)
alphabet
(in
Prosite
)
AT_CDATA
(in
Bio.EUtils.POM
)
add_attribute()
(in
ClassHolder
)
alphabet()
(in
Bio.Std
)
AT_END
(in
Martel.msre_constants
)
add_attribute()
(in
FunctionHolder
)
alphabet_matches
(in
SchemaDNAAlphabet
)
AT_END_LINE
(in
Martel.msre_constants
)
add_blank()
(in
SourceFile
)
AlphabetEncoder
(in
Bio.Alphabet
)
AT_END_STRING
(in
Martel.msre_constants
)
add_class()
(in
SourceFile
)
Alt
AT_ENTITIES
(in
Bio.EUtils.POM
)
add_comment()
(in
SourceFile
)
Alt()
(in
Martel
)
AT_ENTITY
(in
Bio.EUtils.POM
)
add_count()
(in
ChromosomeCounts
)
alternate_name()
(in
_RecordConsumer
)
AT_ID
(in
Bio.EUtils.POM
)
add_doc()
(in
SourceFile
)
alternative_download_url
(in
PDBList
)
AT_IDREF
(in
Bio.EUtils.POM
)
add_edge()
(in
Graph
)
ambiguity()
(in
GenericParser
)
AT_IDREFS
(in
Bio.EUtils.POM
)
add_edge()
(in
MultiGraph
)
Ambiguous
(in
Bio.Restriction.Restriction
)
AT_LOC_BOUNDARY
(in
Martel.msre_constants
)
add_entry()
(in
BlastTableRec
)
ambiguous_dna
(in
Bio.Alphabet.IUPAC
)
AT_LOC_NON_BOUNDARY
(in
Martel.msre_constants
)
add_examples()
(in
ExampleManager
)
ambiguous_dna_by_id
(in
Bio.Data.CodonTable
)
AT_LOCALE
(in
Martel.msre_constants
)
add_feature_qualifier()
(in
Handle_features
)
ambiguous_dna_by_id
(in
Bio.Translate
)
AT_MULTILINE
(in
Martel.msre_constants
)
add_filename()
(in
WriteDB
)
ambiguous_dna_by_name
(in
Bio.Data.CodonTable
)
AT_NMTOKEN
(in
Bio.EUtils.POM
)
add_first_text_handler()
(in
Bio.StdHandler
)
ambiguous_dna_by_name
(in
Bio.Translate
)
AT_NMTOKENS
(in
Bio.EUtils.POM
)
add_function()
(in
SourceFile
)
ambiguous_dna_complement
(in
Bio.Data.IUPACData
)
AT_NON_BOUNDARY
(in
Martel.msre_constants
)
add_group()
(in
GeneratorState
)
ambiguous_dna_letters
(in
Bio.Data.IUPACData
)
AT_UNI_BOUNDARY
(in
Martel.msre_constants
)
add_hsp_seqs()
(in
Handle_hsp
)
ambiguous_dna_values
(in
Bio.Data.IUPACData
)
AT_UNI_NON_BOUNDARY
(in
Martel.msre_constants
)
add_import()
(in
SourceFile
)
ambiguous_dna_weight_ranges
(in
Bio.Data.IUPACData
)
AT_UNICODE
(in
Martel.msre_constants
)
add_instance()
(in
Motif
)
ambiguous_generic_by_id
(in
Bio.Data.CodonTable
)
AtBeginning
add_instance()
(in
Motif
)
ambiguous_generic_by_name
(in
Bio.Data.CodonTable
)
ATCODES
(in
Martel.msre_constants
)
add_instance()
(in
_MEMEConsumer
)
ambiguous_rna
(in
Bio.Alphabet.IUPAC
)
AtEnd
add_instance_from_values()
(in
MEMEMotif
)
ambiguous_rna_by_id
(in
Bio.Data.CodonTable
)
atoi
(in
Martel.msre_parse
)
add_int_handler()
(in
Bio.StdHandler
)
ambiguous_rna_by_id
(in
Bio.Translate
)
Atom
(in
Bio.PDB
)
add_interaction()
(in
Network
)
ambiguous_rna_by_name
(in
Bio.Data.CodonTable
)
Atom
(in
Bio.PDB.Atom
)
add_label()
(in
ChromosomeCounts
)
ambiguous_rna_by_name
(in
Bio.Translate
)
attempt_read_and_call()
(in
Bio.ParserSupport
)
add_location()
(in
Handle_features
)
ambiguous_rna_complement
(in
Bio.Data.IUPACData
)
ATTLIST
(in
IconUrl
)
add_method()
(in
ClassHolder
)
ambiguous_rna_letters
(in
Bio.Data.IUPACData
)
ATTLIST
(in
ObjectUrl
)
add_module()
(in
ObjectParserHandler
)
ambiguous_rna_values
(in
Bio.Data.IUPACData
)
ATTLIST
(in
Url
)
add_nocheck()
(in
RestrictionBatch
)
ambiguous_rna_weight_ranges
(in
Bio.Data.IUPACData
)
ATTLIST
(in
apad
)
add_node()
(in
Graph
)
ambiguous_transcriber
(in
Bio.Transcribe
)
ATTLIST
(in
pad
)
add_node()
(in
MultiGraph
)
AmbiguousCodonTable
(in
Bio.Data.CodonTable
)
ATTLIST
(in
strip
)
add_primer_set()
(in
PrimerSearchInputRecord
)
AmbiguousForwardTable
(in
Bio.Data.CodonTable
)
ATTLIST
(in
subs
)
add_primer_set()
(in
InputRecord
)
AmbiguousRepair
(in
Bio.GA.Repair.Stabilizing
)
ATTLIST
(in
Id
)
add_reaction()
(in
System
)
Amplifier
(in
Bio.Emboss.PrimerSearch
)
ATTLIST
(in
Item
)
add_record()
(in
BerkeleyDB
)
amplifier
(in
Bio.Emboss.primersearch_format
)
ATTLIST
(in
ElementNode
)
add_record()
(in
MemoryFlatDB
)
amplifier()
(in
_PrimerSearchRecordConsumer
)
Attribute
(in
Bio.EUtils.DTDs.LinkOut
)
add_ref()
(in
IDREFS
)
amplifier_length
(in
Bio.Emboss.primersearch_format
)
Attribute
(in
Bio.EUtils.DTDs.eLink_020511
)
add_residue()
(in
Fragment
)
amplifier_length()
(in
_PrimerSearchRecordConsumer
)
AttributeList
add_sequence()
(in
Alignment
)
amplifier_length_line
(in
Bio.Emboss.primersearch_format
)
attributes()
(in
ElementNode
)
add_sequence()
(in
Nexus
)
amplifier_sequence
(in
Bio.Emboss.primersearch_format
)
augment()
(in
GenericParser
)
add_species()
(in
Network
)
amplifier_sequence()
(in
_PrimerSearchRecordConsumer
)
author()
(in
_RecordConsumer
)
add_succ()
(in
Node
)
amplifier_sequence_lines
(in
Bio.Emboss.primersearch_format
)
authors()
(in
_FeatureConsumer
)
add_supplier()
(in
RestrictionBatch
)
amplimer_line
(in
Bio.Emboss.primersearch_format
)
authors()
(in
_RecordConsumer
)
add_test
(in
Martel.test.test_swissprot38
)
Analysis
(in
Bio.Restriction.Restriction
)
autocommit()
(in
Adaptor
)
add_test()
(in
Storage
)
And
(in
Bio.EUtils.Datatypes
)
autocommit()
(in
Generic_dbutils
)
add_test_lines
(in
Martel.test.test_swissprot38
)
angle()
(in
Vector
)
autocommit()
(in
Pgdb_dbutils
)
add_test_lines()
(in
Storage
)
annotate()
(in
Bio.PDB.PSEA
)
autocommit()
(in
Psycopg2_dbutils
)
add_text()
(in
Comment
)
annotations
(in
DBSeqRecord
)
autocommit()
(in
Psycopg_dbutils
)
add_text()
(in
ElementNode
)
Antiparallel()
(in
Bio.Restriction._Update.RestrictionCompiler
)
available_matrices
(in
Bio.SubsMat.MatrixInfo
)
add_text()
(in
IndentedText
)
ANY
(in
Bio.EUtils.POM
)
available_results()
(in
ApplicationResult
)
add_text()
(in
POMDocument
)
Any
avg_ambiguous_dna_weights
(in
Bio.Data.IUPACData
)
add_text_block_handler()
(in
Bio.StdHandler
)
ANY
(in
Martel.msre_constants
)
avg_ambiguous_rna_weights
(in
Bio.Data.IUPACData
)
add_text_decode_handler()
(in
Bio.StdHandler
)
Any()
(in
Martel
)
avg_extended_protein_weights
(in
Bio.Data.IUPACData
)
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