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| AnnotationHubData-package | Transform public data resources into Bioconductor Data Structures |
| AnnotationHubRecipes-package | Transform public data resources into Bioconductor Data Structures |
| ahmToJson | Class '"AnnotationHubMetadata"' and methods |
| amazon | Upload a file to Amazon S3 |
| AnnotationHubMetadata | Class '"AnnotationHubMetadata"' and methods |
| AnnotationHubMetadata-class | Class '"AnnotationHubMetadata"' and methods |
| AnnotationHubRecipes | Transform public data resources into Bioconductor Data Structures |
| annotationHubRoot | Class 'ImportPreparer' and generic 'newResources' |
| AWS | Upload a file to Amazon S3 |
| checkSpeciesTaxId | ValidationFunctions |
| class:AnnotationHubMetadata | Class '"AnnotationHubMetadata"' and methods |
| class:HubMetadata | Class '"AnnotationHubMetadata"' and methods |
| constructSeqInfo | Class '"AnnotationHubMetadata"' and methods |
| dbSNPVCFImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| dbSNPVCFImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| deleteResources | Class '"AnnotationHubMetadata"' and methods |
| EncodeImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| EncodeImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| EnsemblFastaImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| EnsemblFastaImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| ensemblFastaToFaFile | Functions to convert Ensembl FASTA files to FaFile and TwoBitFile for inclusion in AnnotationHub. |
| ensemblFastaToTwoBitFile | Functions to convert Ensembl FASTA files to FaFile and TwoBitFile for inclusion in AnnotationHub. |
| EnsemblGtfImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| EnsemblGtfImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| flog | flog |
| gencodeFastaToFaFile | Recipe to add Gencode FASTA resources to AnnotationHub |
| getImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| getImportPreparerClasses | Class '"AnnotationHubMetadata"' and methods |
| getSpeciesList | ValidationFunctions |
| getValidSourceTypes | ValidationFunctions |
| Grasp2ImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| Grasp2ImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| HaemCodeImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| HaemCodeImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| hubError | Class '"AnnotationHubMetadata"' and methods |
| hubError-method | Class '"AnnotationHubMetadata"' and methods |
| hubError<- | Class '"AnnotationHubMetadata"' and methods |
| hubError<--method | Class '"AnnotationHubMetadata"' and methods |
| HubMetadata | Class '"AnnotationHubMetadata"' and methods |
| HubMetadata-class | Class '"AnnotationHubMetadata"' and methods |
| HubMetadataFromJson | Class '"AnnotationHubMetadata"' and methods |
| ImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| Inparanoid8ImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| Inparanoid8ImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| inputFiles | Class '"AnnotationHubMetadata"' and methods |
| inputFiles-method | Class '"AnnotationHubMetadata"' and methods |
| makeAnnotationHubMetadata | Make AnnotationHubMetadata objects from csv file of metadata |
| makeAnnotationHubResource | Class '"AnnotationHubMetadata"' and methods |
| makeEnsemblFasta | Functions to convert Ensembl FASTA files to FaFile and TwoBitFile for inclusion in AnnotationHub. |
| makeEnsemblFastaToAHM | Functions to convert Ensembl FASTA files to FaFile and TwoBitFile for inclusion in AnnotationHub. |
| makeEnsemblTwoBitToAHM | Functions to convert Ensembl FASTA files to FaFile and TwoBitFile for inclusion in AnnotationHub. |
| makeGencodeFasta | Recipe to add Gencode FASTA resources to AnnotationHub |
| makeGencodeFastaToAHM | Recipe to add Gencode FASTA resources to AnnotationHub |
| makeNCBIToOrgDbsToAHM | Functions to add OrgDb and TxDb sqlite files to AnnotationHub |
| makeNonStandardOrgDbs | Functions to add OrgDb and TxDb sqlite files to AnnotationHub |
| makeStandardOrgDbs | Functions to add OrgDb and TxDb sqlite files to AnnotationHub |
| makeStandardOrgDbsToAHM | Functions to add OrgDb and TxDb sqlite files to AnnotationHub |
| makeStandardTxDbs | Functions to add OrgDb and TxDb sqlite files to AnnotationHub |
| makeStandardTxDbsToAHM | Functions to add OrgDb and TxDb sqlite files to AnnotationHub |
| metadata | Class '"AnnotationHubMetadata"' and methods |
| metadata-method | Class '"AnnotationHubMetadata"' and methods |
| metadata<- | Class '"AnnotationHubMetadata"' and methods |
| metadata<--method | Class '"AnnotationHubMetadata"' and methods |
| metadataList | Class 'ImportPreparer' and generic 'newResources' |
| metadataTable | Class 'ImportPreparer' and generic 'newResources' |
| NCBIImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| NCBIImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| newResources | Class 'ImportPreparer' and generic 'newResources' |
| newResources-method | Class 'ImportPreparer' and generic 'newResources' |
| outputFile | Class '"AnnotationHubMetadata"' and methods |
| outputFile-method | Class '"AnnotationHubMetadata"' and methods |
| pushMetadata | updateResources |
| pushResources | updateResources |
| recipeName | Class '"AnnotationHubMetadata"' and methods |
| recipeName-method | Class '"AnnotationHubMetadata"' and methods |
| RefNetImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| RefNetImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| run | Class '"AnnotationHubMetadata"' and methods |
| run-method | Class '"AnnotationHubMetadata"' and methods |
| runRecipes | updateResources |
| runRecipes-method | updateResources |
| S3 | Upload a file to Amazon S3 |
| show | Class '"AnnotationHubMetadata"' and methods |
| show-method | Class '"AnnotationHubMetadata"' and methods |
| show-method | Class 'ImportPreparer' and generic 'newResources' |
| sourceUrls | Class 'ImportPreparer' and generic 'newResources' |
| suggestSpecies | ValidationFunctions |
| toJson | Class '"AnnotationHubMetadata"' and methods |
| UCSCChainPreparer | Class 'ImportPreparer' and generic 'newResources' |
| UCSCChainPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| UCSCTrackImportPreparer | Class 'ImportPreparer' and generic 'newResources' |
| UCSCTrackImportPreparer-class | Class 'ImportPreparer' and generic 'newResources' |
| updateResources | updateResources |
| upload_to_S3 | Upload a file to Amazon S3 |
| validationFunctions | ValidationFunctions |
| validDispatchClass | ValidationFunctions |
| validSpecies | ValidationFunctions |