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Identifier Index
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A
a
(in
ColorSpiral
)
add_succ()
(in
Node
)
AnnotatedChromosomeSegment
(in
Bio.Graphics.BasicChromosome
)
aa1
(in
Bio.PDB.Polypeptide
)
add_supplier()
(in
RestrictionBatch
)
Annotation
(in
Bio.Phylo.PhyloXML
)
aa3
(in
Bio.PDB.Polypeptide
)
add_track()
(in
Diagram
)
annotation()
(in
Parser
)
AanI
(in
Bio.Restriction.Restriction
)
add_wgs_scafld()
(in
_FeatureConsumer
)
annotation()
(in
Writer
)
AarI
(in
Bio.Restriction.Restriction
)
add_wgs_scafld()
(in
_RecordConsumer
)
annotations
(in
DBSeqRecord
)
AasI
(in
Bio.Restriction.Restriction
)
AdeI
(in
Bio.Restriction.Restriction
)
anticonsensus
(in
Motif
)
AatII
(in
Bio.Restriction.Restriction
)
Adh6U21I
(in
Bio.Restriction.Restriction
)
anticonsensus
(in
GenericPositionMatrix
)
Aba6411II
(in
Bio.Restriction.Restriction
)
af
(in
Bio.Sequencing.Ace
)
Aod1I
(in
Bio.Restriction.Restriction
)
AbaB8342IV
(in
Bio.Restriction.Restriction
)
AfaI
(in
Bio.Restriction.Restriction
)
Aor13HI
(in
Bio.Restriction.Restriction
)
AbaCIII
(in
Bio.Restriction.Restriction
)
AfeI
(in
Bio.Restriction.Restriction
)
Aor51HI
(in
Bio.Restriction.Restriction
)
AbaSI
(in
Bio.Restriction.Restriction
)
affine_penalty
(in
Bio.pairwise2
)
AoxI
(in
Bio.Restriction.Restriction
)
AbaUMB2I
(in
Bio.Restriction.Restriction
)
Affy
(in
Bio
)
ApaBI
(in
Bio.Restriction.Restriction
)
AbiIO
(in
Bio.SeqIO
)
AfiI
(in
Bio.Restriction.Restriction
)
ApaI
(in
Bio.Restriction.Restriction
)
AbiIterator()
(in
Bio.SeqIO.AbiIO
)
AflII
(in
Bio.Restriction.Restriction
)
ApaLI
(in
Bio.Restriction.Restriction
)
abs()
(in
FSSPAlignDict
)
AflIII
(in
Bio.Restriction.Restriction
)
ApeKI
(in
Bio.Restriction.Restriction
)
abs_res_num
(in
align
)
AfterPosition
(in
Bio.SeqFeature
)
api_key
(in
Bio.Entrez
)
AbsI
(in
Bio.Restriction.Restriction
)
AgeI
(in
Bio.Restriction.Restriction
)
ApoI
(in
Bio.Restriction.Restriction
)
absorb()
(in
QueryResult
)
AgsI
(in
Bio.Restriction.Restriction
)
append()
(in
MultipleSeqAlignment
)
AbstractAtomPropertyMap
(in
Bio.PDB.AbstractPropertyMap
)
AhaIII
(in
Bio.Restriction.Restriction
)
append()
(in
Chain
)
AbstractCommandline
(in
Bio.Application
)
AhdI
(in
Bio.Restriction.Restriction
)
append()
(in
SeqMap
)
AbstractConsumer
(in
Bio.SearchIO._legacy.ParserSupport
)
AhlI
(in
Bio.Restriction.Restriction
)
append()
(in
Hit
)
AbstractCut
(in
Bio.Restriction.Restriction
)
AhyRBAHI
(in
Bio.Restriction.Restriction
)
append()
(in
QueryResult
)
AbstractDPAlgorithms
(in
Bio.HMM.DynamicProgramming
)
AhyYL17I
(in
Bio.Restriction.Restriction
)
append()
(in
MutableSeq
)
AbstractDrawer
(in
Bio.Graphics.GenomeDiagram._AbstractDrawer
)
AjiI
(in
Bio.Restriction.Restriction
)
append()
(in
Alignment
)
AbstractParser
(in
Bio.SearchIO._legacy.ParserSupport
)
AjnI
(in
Bio.Restriction.Restriction
)
append()
(in
AlignmentColumn
)
AbstractPosition
(in
Bio.SeqFeature
)
AjuI
(in
Bio.Restriction.Restriction
)
append_item()
(in
DescriptionExt
)
AbstractPropertyMap
(in
Bio.PDB
)
AleI
(in
Bio.Restriction.Restriction
)
append_sets()
(in
Nexus
)
AbstractPropertyMap
(in
Bio.PDB.AbstractPropertyMap
)
AlfI
(in
Bio.Restriction.Restriction
)
Application
(in
Bio
)
AbstractResiduePropertyMap
(in
Bio.PDB.AbstractPropertyMap
)
Align
(in
Bio
)
ApplicationError
(in
Bio.Application
)
AbstractTrainer
(in
Bio.HMM.Trainer
)
align
(in
Bio.FSSP.fssp_rec
)
Applications
(in
Bio.Align
)
acc
(in
align
)
align
(in
Bio.pairwise2
)
Applications
(in
Bio.Blast
)
Acc16I
(in
Bio.Restriction.Restriction
)
align()
(in
PairwiseAligner
)
Applications
(in
Bio.Emboss
)
Acc36I
(in
Bio.Restriction.Restriction
)
align()
(in
_HSPConsumer
)
Applications
(in
Bio.Phylo
)
Acc65I
(in
Bio.Restriction.Restriction
)
align()
(in
Bio.Wise
)
Applications
(in
Bio.Sequencing
)
Acc65V
(in
Bio.Restriction.Restriction
)
align()
(in
Bio.Wise.dnal
)
applications
(in
Bio.motifs
)
AccB1I
(in
Bio.Restriction.Restriction
)
align()
(in
Bio.Wise.psw
)
apply()
(in
Superimposer
)
AccB7I
(in
Bio.Restriction.Restriction
)
alignace
(in
Bio.motifs
)
ApyPI
(in
Bio.Restriction.Restriction
)
AccBSI
(in
Bio.Restriction.Restriction
)
aligned
(in
PairwiseAlignment
)
AquII
(in
Bio.Restriction.Restriction
)
accept_atom()
(in
ChainSelector
)
AlignInfo
(in
Bio.Align
)
AquIII
(in
Bio.Restriction.Restriction
)
accept_atom()
(in
Select
)
AlignIO
(in
Bio
)
AquIV
(in
Bio.Restriction.Restriction
)
accept_chain()
(in
ChainSelector
)
Alignment
(in
Bio.Blast.Record
)
aromaticity()
(in
ProteinAnalysis
)
accept_chain()
(in
Select
)
Alignment
(in
Bio.Wise.psw
)
Array
(in
Bio.Align.substitution_matrices
)
accept_model()
(in
ChainSelector
)
AlignmentColumn
(in
Bio.Wise.psw
)
ArsI
(in
Bio.Restriction.Restriction
)
accept_model()
(in
Select
)
AlignmentColumnFullException
(in
Bio.Wise.psw
)
artemis_color()
(in
ColorTranslator
)
accept_residue()
(in
ChainSelector
)
AlignmentHasDifferentLengthsError
(in
Bio.CAPS
)
as_fasta()
(in
Bio.SeqIO.FastaIO
)
accept_residue()
(in
Select
)
AlignmentIterator
(in
Bio.AlignIO.Interfaces
)
as_fasta_2line()
(in
Bio.SeqIO.FastaIO
)
Accession
(in
Bio.Phylo.PhyloXML
)
alignments_rec
(in
Bio.FSSP
)
as_fastq()
(in
Bio.SeqIO.QualityIO
)
accession()
(in
_FeatureConsumer
)
alignments_title
(in
Bio.FSSP
)
as_fastq_illumina()
(in
Bio.SeqIO.QualityIO
)
accession()
(in
_RecordConsumer
)
AlignmentWriter
(in
Bio.AlignIO.Interfaces
)
as_fastq_solexa()
(in
Bio.SeqIO.QualityIO
)
accession()
(in
Parser
)
all_get_indices()
(in
KDTree
)
as_handle()
(in
Bio.File
)
accession()
(in
Writer
)
all_get_radii()
(in
KDTree
)
as_phyloxml()
(in
Tree
)
AccI
(in
Bio.Restriction.Restriction
)
all_ids()
(in
Chain
)
as_phyloxml()
(in
Phylogeny
)
AccII
(in
Bio.Restriction.Restriction
)
all_pairs()
(in
Bio.Wise
)
as_qual()
(in
Bio.SeqIO.QualityIO
)
AccIII
(in
Bio.Restriction.Restriction
)
all_search()
(in
KDTree
)
as_string()
(in
Bio.Phylo.BaseTree
)
ACCREP
(in
Bio.SubsMat
)
all_suppliers()
(in
AbstractCut
)
as_string()
(in
RestrictionBatch
)
Ace
(in
Bio.Sequencing
)
AllEnzymes
(in
Bio.Restriction.Restriction
)
as_tab()
(in
Bio.SeqIO.TabIO
)
ACEFileRecord
(in
Bio.Sequencing.Ace
)
allitems()
(in
Bio.SearchIO._utils
)
AscI
(in
Bio.Restriction.Restriction
)
AceIII
(in
Bio.Restriction.Restriction
)
allow_all_transitions()
(in
MarkovModelBuilder
)
AseI
(in
Bio.Restriction.Restriction
)
AceIO
(in
Bio.SeqIO
)
allow_transition()
(in
MarkovModelBuilder
)
Asi256I
(in
Bio.Restriction.Restriction
)
AceIterator()
(in
Bio.SeqIO.AceIO
)
aln
(in
HSP
)
AsiGI
(in
Bio.Restriction.Restriction
)
AchA6III
(in
Bio.Restriction.Restriction
)
aln
(in
HSPFragment
)
AsiSI
(in
Bio.Restriction.Restriction
)
AciI
(in
Bio.Restriction.Restriction
)
aln_all
(in
HSP
)
Asp103I
(in
Bio.Restriction.Restriction
)
AclI
(in
Bio.Restriction.Restriction
)
aln_annotation
(in
HSP
)
Asp114pII
(in
Bio.Restriction.Restriction
)
AclWI
(in
Bio.Restriction.Restriction
)
aln_annotation_all
(in
HSP
)
Asp700I
(in
Bio.Restriction.Restriction
)
Aco12261II
(in
Bio.Restriction.Restriction
)
aln_span
(in
HSP
)
Asp718I
(in
Bio.Restriction.Restriction
)
AcoI
(in
Bio.Restriction.Restriction
)
aln_span
(in
HSPFragment
)
AspA2I
(in
Bio.Restriction.Restriction
)
AcoY31II
(in
Bio.Restriction.Restriction
)
AloI
(in
Bio.Restriction.Restriction
)
AspBHI
(in
Bio.Restriction.Restriction
)
AcsI
(in
Bio.Restriction.Restriction
)
alphabet
(in
Array
)
AspDUT2V
(in
Bio.Restriction.Restriction
)
AcuI
(in
Bio.Restriction.Restriction
)
Alphabet
(in
Bio
)
AspJHL3II
(in
Bio.Restriction.Restriction
)
AcvI
(in
Bio.Restriction.Restriction
)
Alphabet
(in
Bio.Alphabet
)
AspLEI
(in
Bio.Restriction.Restriction
)
AcyI
(in
Bio.Restriction.Restriction
)
alphabet
(in
HSP
)
AspNIH4III
(in
Bio.Restriction.Restriction
)
adam_consensus()
(in
Bio.Phylo.Consensus
)
alphabet
(in
HSPFragment
)
AspS9I
(in
Bio.Restriction.Restriction
)
Adaptor
(in
BioSQL.BioSeqDatabase
)
AlphabetEncoder
(in
Bio.Alphabet
)
AspSLV7III
(in
Bio.Restriction.Restriction
)
add()
(in
_ChromosomeComponent
)
alphabets
(in
Sequence
)
Astral
(in
Bio.SCOP
)
add()
(in
StepMatrix
)
alt()
(in
Writer
)
astralBibIds
(in
Bio.SCOP
)
add()
(in
Chain
)
AluBI
(in
Bio.Restriction.Restriction
)
astralEv_to_file
(in
Bio.SCOP
)
add()
(in
Entity
)
AluI
(in
Bio.Restriction.Restriction
)
astralEv_to_sql
(in
Bio.SCOP
)
add()
(in
DisorderedResidue
)
Alw21I
(in
Bio.Restriction.Restriction
)
astralEvs
(in
Bio.SCOP
)
add()
(in
Residue
)
Alw26I
(in
Bio.Restriction.Restriction
)
Asu14238IV
(in
Bio.Restriction.Restriction
)
add()
(in
RestrictionBatch
)
Alw44I
(in
Bio.Restriction.Restriction
)
AsuC2I
(in
Bio.Restriction.Restriction
)
add_align_list()
(in
FSSPAlignRec
)
AlwFI
(in
Bio.Restriction.Restriction
)
AsuHPI
(in
Bio.Restriction.Restriction
)
add_annotation()
(in
Parser
)
AlwI
(in
Bio.Restriction.Restriction
)
AsuI
(in
Bio.Restriction.Restriction
)
add_buffer_protocol_flag()
(in
Bio.Align._aligners
)
AlwNI
(in
Bio.Restriction.Restriction
)
AsuII
(in
Bio.Restriction.Restriction
)
add_component()
(in
Entry
)
Ama87I
(in
Bio.Restriction.Restriction
)
AsuNHI
(in
Bio.Restriction.Restriction
)
add_count()
(in
ChromosomeCounts
)
AmaCSI
(in
Bio.Restriction.Restriction
)
AteTI
(in
Bio.Restriction.Restriction
)
add_edge()
(in
Graph
)
Ambiguous
(in
Bio.Restriction.Restriction
)
Atom
(in
Bio.PDB
)
add_edge()
(in
MultiGraph
)
ambiguous_dna
(in
Bio.Alphabet.IUPAC
)
Atom
(in
Bio.PDB.Atom
)
add_entry()
(in
BlastTableRec
)
ambiguous_dna_by_id
(in
Bio.Data.CodonTable
)
atom_weights
(in
Bio.Data.IUPACData
)
add_entry()
(in
Pathway
)
ambiguous_dna_by_name
(in
Bio.Data.CodonTable
)
atom_weights
(in
Bio.PDB.PDBIO'
)
add_feature()
(in
FeatureSet
)
ambiguous_dna_complement
(in
Bio.Data.IUPACData
)
AtomIterator()
(in
Bio.SeqIO.PdbIO
)
add_graphics()
(in
Entry
)
ambiguous_dna_letters
(in
Bio.Data.IUPACData
)
attempt_read_and_call()
(in
Bio.SearchIO._legacy.ParserSupport
)
add_interaction()
(in
Network
)
ambiguous_dna_values
(in
Bio.Data.IUPACData
)
authors()
(in
_FeatureConsumer
)
add_label()
(in
ChromosomeCounts
)
ambiguous_dna_weight_ranges
(in
Bio.Data.IUPACData
)
authors()
(in
_RecordConsumer
)
add_nocheck()
(in
RestrictionBatch
)
ambiguous_generic_by_id
(in
Bio.Data.CodonTable
)
autocommit()
(in
Adaptor
)
add_node()
(in
Graph
)
ambiguous_generic_by_name
(in
Bio.Data.CodonTable
)
autocommit()
(in
Generic_dbutils
)
add_node()
(in
MultiGraph
)
ambiguous_rna
(in
Bio.Alphabet.IUPAC
)
autocommit()
(in
Pgdb_dbutils
)
add_point()
(in
GraphData
)
ambiguous_rna_by_id
(in
Bio.Data.CodonTable
)
autocommit()
(in
Psycopg2_dbutils
)
add_primer_set()
(in
InputRecord
)
ambiguous_rna_by_name
(in
Bio.Data.CodonTable
)
AvaI
(in
Bio.Restriction.Restriction
)
add_product()
(in
Reaction
)
ambiguous_rna_complement
(in
Bio.Data.IUPACData
)
AvaII
(in
Bio.Restriction.Restriction
)
add_reaction()
(in
Pathway
)
ambiguous_rna_letters
(in
Bio.Data.IUPACData
)
AvaIII
(in
Bio.Restriction.Restriction
)
add_reaction()
(in
System
)
ambiguous_rna_values
(in
Bio.Data.IUPACData
)
available_matrices
(in
Bio.SubsMat.MatrixInfo
)
add_relation()
(in
Pathway
)
ambiguous_rna_weight_ranges
(in
Bio.Data.IUPACData
)
avg_ambiguous_dna_weights
(in
Bio.Data.IUPACData
)
add_residue()
(in
Fragment
)
AmbiguousCodonTable
(in
Bio.Data.CodonTable
)
avg_ambiguous_rna_weights
(in
Bio.Data.IUPACData
)
add_sequence()
(in
MultipleSeqAlignment
)
AmbiguousForwardTable
(in
Bio.Data.CodonTable
)
avg_extended_protein_weights
(in
Bio.Data.IUPACData
)
add_sequence()
(in
Nexus
)
Amplifier
(in
Bio.Emboss.PrimerSearch
)
AvrII
(in
Bio.Restriction.Restriction
)
add_set()
(in
Track
)
Analysis
(in
Bio.Restriction.Restriction
)
Awo1030IV
(in
Bio.Restriction.Restriction
)
add_species()
(in
Network
)
angle()
(in
Vector
)
AxyI
(in
Bio.Restriction.Restriction
)
add_stmt_to_handle()
(in
Writer
)
angle2trig()
(in
Bio.Graphics.GenomeDiagram._AbstractDrawer
)
add_substrate()
(in
Reaction
)
annotate()
(in
Bio.PDB.PSEA
)
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