A C D E F G H K L M O P R S T U
| activeFilter | Globally add filters to an EnsDb database |
| activeFilter-method | Globally add filters to an EnsDb database |
| addFilter | Globally add filters to an EnsDb database |
| addFilter-method | Globally add filters to an EnsDb database |
| cdsBy | Retrieve annotation data from an Ensembl based package |
| cdsBy-method | Retrieve annotation data from an Ensembl based package |
| cdsToTranscript | Map positions within the CDS to coordinates relative to the start of the transcript |
| columns-method | Integration into the AnnotationDbi framework |
| convertFilter-method | Convert an AnnotationFilter to a SQL WHERE condition for EnsDb |
| dbconn | Basic usage of an Ensembl based annotation database |
| dbconn-method | Basic usage of an Ensembl based annotation database |
| Deprecated | Deprecated functionality |
| disjointExons-method | Retrieve annotation data from an Ensembl based package |
| dropFilter | Globally add filters to an EnsDb database |
| dropFilter-method | Globally add filters to an EnsDb database |
| EnsDb | Connect to an EnsDb object |
| EnsDb-class | Basic usage of an Ensembl based annotation database |
| ensDbFromAH | Generating a Ensembl annotation package from Ensembl |
| ensDbFromGff | Generating a Ensembl annotation package from Ensembl |
| ensDbFromGRanges | Generating a Ensembl annotation package from Ensembl |
| ensDbFromGtf | Generating a Ensembl annotation package from Ensembl |
| ensembldb-deprecated | Deprecated functionality |
| ensemblVersion | Basic usage of an Ensembl based annotation database |
| ensemblVersion-method | Basic usage of an Ensembl based annotation database |
| EntrezidFilter | Deprecated functionality |
| ExonidFilter | Deprecated functionality |
| ExonrankFilter | Deprecated functionality |
| exons | Retrieve annotation data from an Ensembl based package |
| exons-method | Retrieve annotation data from an Ensembl based package |
| exonsBy | Retrieve annotation data from an Ensembl based package |
| exonsBy-method | Retrieve annotation data from an Ensembl based package |
| exonsByOverlaps-method | Retrieve annotation data from an Ensembl based package |
| fetchTablesFromEnsembl | Generating a Ensembl annotation package from Ensembl |
| filter | Globally add filters to an EnsDb database |
| Filter-classes | Filters supported by ensembldb |
| fiveUTRsByTranscript-method | Retrieve annotation data from an Ensembl based package |
| GenebiotypeFilter | Deprecated functionality |
| GeneidFilter | Deprecated functionality |
| genes | Retrieve annotation data from an Ensembl based package |
| genes-method | Retrieve annotation data from an Ensembl based package |
| genomeToProtein | Map genomic coordinates to protein coordinates |
| genomeToTranscript | Map genomic coordinates to transcript coordinates |
| getGeneRegionTrackForGviz | Utility functions |
| getGeneRegionTrackForGviz-method | Utility functions |
| getGenomeFaFile | Functionality related to DNA/RNA sequences |
| getGenomeFaFile-method | Functionality related to DNA/RNA sequences |
| hasProteinData | Determine whether protein data is available in the database |
| hasProteinData-method | Determine whether protein data is available in the database |
| keys-method | Integration into the AnnotationDbi framework |
| keytypes-method | Integration into the AnnotationDbi framework |
| lengthOf | Calculating lengths of features |
| lengthOf-method | Calculating lengths of features |
| listColumns | Basic usage of an Ensembl based annotation database |
| listColumns-method | Basic usage of an Ensembl based annotation database |
| listEnsDbs | List EnsDb databases in a MySQL server |
| listGenebiotypes | Basic usage of an Ensembl based annotation database |
| listGenebiotypes-method | Basic usage of an Ensembl based annotation database |
| listProteinColumns | Protein related functionality |
| listTables | Basic usage of an Ensembl based annotation database |
| listTables-method | Basic usage of an Ensembl based annotation database |
| listTxbiotypes | Basic usage of an Ensembl based annotation database |
| listTxbiotypes-method | Basic usage of an Ensembl based annotation database |
| listUniprotDbs | Protein related functionality |
| listUniprotDbs-method | Protein related functionality |
| listUniprotMappingTypes | Protein related functionality |
| listUniprotMappingTypes-method | Protein related functionality |
| makeEnsembldbPackage | Generating a Ensembl annotation package from Ensembl |
| makeEnsemblSQLiteFromTables | Generating a Ensembl annotation package from Ensembl |
| mapIds-method | Integration into the AnnotationDbi framework |
| metadata | Basic usage of an Ensembl based annotation database |
| metadata-method | Basic usage of an Ensembl based annotation database |
| OnlyCodingTxFilter | Filters supported by ensembldb |
| OnlyCodingTxFilter-class | Filters supported by ensembldb |
| organism | Basic usage of an Ensembl based annotation database |
| organism-method | Basic usage of an Ensembl based annotation database |
| promoters | Retrieve annotation data from an Ensembl based package |
| promoters-method | Retrieve annotation data from an Ensembl based package |
| ProtDomIdFilter | Filters supported by ensembldb |
| ProtDomIdFilter-class | Filters supported by ensembldb |
| ProteinDomainIdFilter | Filters supported by ensembldb |
| ProteinDomainIdFilter-class | Filters supported by ensembldb |
| ProteinDomainSourceFilter | Filters supported by ensembldb |
| ProteinDomainSourceFilter-class | Filters supported by ensembldb |
| proteins | Protein related functionality |
| proteins-method | Protein related functionality |
| proteinToGenome | Map within-protein coordinates to genomic coordinates |
| proteinToTranscript | Map protein-relative coordinates to positions within the transcript |
| returnFilterColumns | Basic usage of an Ensembl based annotation database |
| returnFilterColumns-method | Basic usage of an Ensembl based annotation database |
| returnFilterColumns<- | Basic usage of an Ensembl based annotation database |
| returnFilterColumns<--method | Basic usage of an Ensembl based annotation database |
| runEnsDbApp | Search annotations interactively |
| select | Integration into the AnnotationDbi framework |
| select-method | Integration into the AnnotationDbi framework |
| SeqendFilter | Deprecated functionality |
| seqinfo | Basic usage of an Ensembl based annotation database |
| seqinfo-method | Basic usage of an Ensembl based annotation database |
| seqlevels | Basic usage of an Ensembl based annotation database |
| seqlevels-method | Basic usage of an Ensembl based annotation database |
| seqlevels-method | Filters supported by ensembldb |
| seqlevelsStyle | Support for other than Ensembl seqlevel style |
| seqlevelsStyle-method | Support for other than Ensembl seqlevel style |
| seqlevelsStyle<- | Support for other than Ensembl seqlevel style |
| seqlevelsStyle<--method | Support for other than Ensembl seqlevel style |
| SeqnameFilter | Deprecated functionality |
| seqnames-method | Filters supported by ensembldb |
| SeqstartFilter | Deprecated functionality |
| SeqstrandFilter | Deprecated functionality |
| show | Basic usage of an Ensembl based annotation database |
| show-method | Basic usage of an Ensembl based annotation database |
| supportedFilters-method | Filters supported by ensembldb |
| supportedSeqlevelsStyles | Support for other than Ensembl seqlevel style |
| supportedSeqlevelsStyles-method | Support for other than Ensembl seqlevel style |
| threeUTRsByTranscript-method | Retrieve annotation data from an Ensembl based package |
| toSAF | Retrieve annotation data from an Ensembl based package |
| toSAF-method | Retrieve annotation data from an Ensembl based package |
| transcripts | Retrieve annotation data from an Ensembl based package |
| transcripts-method | Retrieve annotation data from an Ensembl based package |
| transcriptsBy | Retrieve annotation data from an Ensembl based package |
| transcriptsBy-method | Retrieve annotation data from an Ensembl based package |
| transcriptsByOverlaps-method | Retrieve annotation data from an Ensembl based package |
| transcriptToCds | Map transcript-relative coordinates to positions within the CDS |
| transcriptToGenome | Map transcript-relative coordinates to genomic coordinates |
| transcriptToProtein | Map transcript-relative coordinates to amino acid residues of the encoded protein |
| TxbiotypeFilter | Deprecated functionality |
| TxidFilter | Deprecated functionality |
| TxSupportLevelFilter | Filters supported by ensembldb |
| TxSupportLevelFilter-class | Filters supported by ensembldb |
| UniprotDbFilter | Filters supported by ensembldb |
| UniprotDbFilter-class | Filters supported by ensembldb |
| UniprotMappingTypeFilter | Filters supported by ensembldb |
| UniprotMappingTypeFilter-class | Filters supported by ensembldb |
| updateEnsDb | Basic usage of an Ensembl based annotation database |
| updateEnsDb-method | Basic usage of an Ensembl based annotation database |
| useMySQL | Use a MySQL backend |
| useMySQL-method | Use a MySQL backend |