TOC for all levels
ensembl-external
ensembl-external::family
ensembl-external::family::bin
ensembl-external::family::modules
ensembl-external::family::modules::Algorithm
ensembl-external::family::scripts
ensembl-external::family::src
ensembl-external::family::src::markov
ensembl-external::modules
ensembl-external::modules::Bio
ensembl-external::modules::Bio::EnsEMBL
ensembl-external::modules::Bio::EnsEMBL::ExternalData
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CDSTrack
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CDSTrack::DBSQL
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CancerGenomeProject
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CancerGenomeProject::SQL
ensembl-external::modules::Bio::EnsEMBL::ExternalData::DAS
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Disease
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression::scripts
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression::scripts::mapping_scripts
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression::sql
ensembl-external::modules::Bio::EnsEMBL::ExternalData::FASTA
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Family
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Family::DBSQL
ensembl-external::modules::Bio::EnsEMBL::ExternalData::GO
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Glovar
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Haplotype
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Mole
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Mole::DBSQL
ensembl-external::modules::Bio::EnsEMBL::ExternalData::SNPSQL
ensembl-external::modules::Bio::EnsEMBL::ExternalData::SangerSNP
ensembl-external::modules::t
ensembl-external::scripts
ensembl-external::scripts::family
ensembl-external::sql
ensembl-externalTop
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ensembl-external::familyTop
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ensembl-external::family::binTop
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ensembl-external::family::modulesTop
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ensembl-external::family::modules::AlgorithmTop
DiffCompute `intelligent' differences between two files / lists
DiffOldCompute `intelligent' differences between two files / lists but use the old (<=0.59) interface.
ensembl-external::family::scriptsTop
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ensembl-external::family::srcTop
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ensembl-external::family::src::markovTop
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ensembl-external::modulesTop
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ensembl-external::modules::BioTop
DBLinkContainerIAbstract interface for any object wanting to use database cross references
ensembl-external::modules::Bio::EnsEMBLTop
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ensembl-external::modules::Bio::EnsEMBL::ExternalDataTop
BaseAdaptorBase Adaptor for DBSQL adaptors
CodingSNPDESCRIPTION of Object
Frequencycreate Frequency object for subSNP population
GeneSNPclass to expand genomic SNP into full gene variation description
Populationcreate Population object for subSNP frequencies
VariationVariation SeqFeature
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CDSTrackTop
Accession(1)
Ccds
CcdsStatus
GroupVersion
Interpretation
Location(1)
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CDSTrack::DBSQLTop
AccessionAdaptor(1)
CcdsAdaptor
CcdsStatusAdaptor
DBAdaptor(1)Bio::EnsEMBL::ExternalData::CDSTrack::DBSQL::DBAdaptor
GroupVersionAdaptor
InterpretationAdaptor
LocationAdaptor(1)
ensembl-external::modules::Bio::EnsEMBL::ExternalData::CancerGenomeProjectTop
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ensembl-external::modules::Bio::EnsEMBL::ExternalData::CancerGenomeProject::SQLTop
DBAdaptor(2)Class for a sequence variation database providing external features for EnsEMBL
LocusAdaptorBio::EnsEMBL::ExternalData::CancerGenomeProject::DBSQL::LocusAdaptor
ensembl-external::modules::Bio::EnsEMBL::ExternalData::DASTop
CoordSystem
CoordinatorBio::EnsEMBL::ExternalData::DAS::Coordinator
FeatureBio::EnsEMBL::ExternalData::DAS::Feature
FeatureGroupBio::EnsEMBL::ExternalData::DAS::FeatureGroup
GenomicMapper
GenomicPeptideMapper
SourceBio::EnsEMBL::ExternalData::DAS::Source
SourceParserBio::EnsEMBL::ExternalData::DAS::SourceParser
StylesheetBio::EnsEMBL::ExternalData::DAS::Stylesheet
XrefPeptideMapper
ensembl-external::modules::Bio::EnsEMBL::ExternalData::DiseaseTop
DBHandlerBio::EnsEMBL::ExternalData::Disease::DBHandler
DiseaseBio::EnsEMBL::ExternalData::Disease::Disease
DiseaseLocationBio::EnsEMBL::ExternalData::Disease::Disease
ensembl-external::modules::Bio::EnsEMBL::ExternalData::ExpressionTop
LibraryBio::EnsEMBL::ExternalData::Expression::Library
LibraryAdaptorBio::EnsEMBL::ExternalData::Expression::LibraryAdaptor
SeqTagBio::EnsEMBL::ExternalData::Expression::SeqTag
SeqTagAdaptorBio::EnsEMBL::ExternalData::Expression::SeqTagAdaptor
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression::scriptsTop
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ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression::scripts::mapping_scriptsTop
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ensembl-external::modules::Bio::EnsEMBL::ExternalData::Expression::sqlTop
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ensembl-external::modules::Bio::EnsEMBL::ExternalData::FASTATop
FASTAAdaptorDESCRIPTION of Object This object represents a database of fasta sequences.
ensembl-external::modules::Bio::EnsEMBL::ExternalData::FamilyTop
FamilyDESCRIPTION of Object
FamilyConfBio::Pipeline::FamilyConf
FamilyMemberDESCRIPTION of Object
GenomeDBBio::EnsEMBL::ExternalData::Family::GenomeDB
TaxonDESCRIPTION of Object
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Family::DBSQLTop
DBAdaptor(3)
FamilyAdaptorDESCRIPTION of Object This object represents a family coming from a database of protein families.
FamilyMemberAdaptorDESCRIPTION of Object This object represents a database of protein families.
GenomeDBAdaptorBio::EnsEMBL::Compara::DBSQL::GenomeDBAdaptor
TaxonAdaptorDESCRIPTION of Object
ensembl-external::modules::Bio::EnsEMBL::ExternalData::GOTop
GOAdaptorDESCRIPTION of Object GO database interface.
ensembl-external::modules::Bio::EnsEMBL::ExternalData::GlovarTop
BaseCompositionThis object represents the base composition as provided by Glovar
DBAdaptor(4)Database adaptor for a Glovar database
DBConnection(1)Database connection object for a Glovar database
GlovarAdaptorDESCRIPTION of Object This object represents the Glovar database.
GlovarBaseCompAdaptorObject adaptor for Glovar base composition
GlovarHaplotypeAdaptorDatabase adaptor for Glovar haplotypes
GlovarSNPAdaptorObject adaptor for Glovar SNPs
GlovarSTSAdaptorDatabase adaptor for Glovar STSs
GlovarTraceAdaptorDatabase adaptor for Glovar traces
Haplotype(1)Object representing a Glovar haplotype
STSObject representing a Glovar STS
ensembl-external::modules::Bio::EnsEMBL::ExternalData::HaplotypeTop
DBAdaptor(5)
Haplotype(2)DESCRIPTION of Object This object represents a database of haplotypes.
HaplotypeAdaptorDESCRIPTION of Object This object represents a database of haplotypes.
PatternDESCRIPTION of Object This object represents a database of haplotype patterns.
SelectSelect htSNP from a haplotype set
TagHaplotype tag object.
ensembl-external::modules::Bio::EnsEMBL::ExternalData::MoleTop
Accession(2)
BlackList
Comment
DBXref
Description
Entry
GeneName
Keyword
Location(2)
Sequence
Taxonomy
ensembl-external::modules::Bio::EnsEMBL::ExternalData::Mole::DBSQLTop
AccessionAdaptor(2)
BlackListAdaptor
CommentAdaptor
DBAdaptor(6)Bio::EnsEMBL::ExternalData::Mole::DBSQL::DBAdaptor
DBXrefAdaptor
DescriptionAdaptor
EntryAdaptor
GeneNameAdaptor
KeywordAdaptor
LocationAdaptor(2)
SequenceAdaptor
TaxonomyAdaptor
ensembl-external::modules::Bio::EnsEMBL::ExternalData::SNPSQLTop
DBAdaptor(7)Class for a sequence variation database providing external features for EnsEMBL
SNPAdaptorBio::EnsEMBL::ExternalData::SNPSQL::SNPAdaptor
WebAdaptorWeb accelerated (light objects) for SNPs
ensembl-external::modules::Bio::EnsEMBL::ExternalData::SangerSNPTop
DBAdaptor(8)Database adaptor for a SangerSNP database
DBConnection(2)Database connection object for a SangerSNP database
TranscriptVariationAdaptorBio::EnsEMBL::ExternalData::SangerSNP::TranscriptVariationAdaptor
VariationAdaptorBio::EnsEMBL::ExternalData::SangerSNP::VariationAdaptor
ensembl-external::modules::tTop
EnsTestDB
ensembl-external::scriptsTop
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ensembl-external::scripts::familyTop
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ensembl-external::sqlTop