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 |