| BATRACHOCHYTRIUM_DENDROBATIDIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| Bimap |
Bimap objects and the Bimap interface |
| Bimap-class |
Bimap objects and the Bimap interface |
| Bimap-direction |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Bimap-envirAPI |
Environment-like API for Bimap objects |
| Bimap-keys |
Methods for manipulating the keys of a Bimap object |
| Bimap-toTable |
Methods for manipulating a Bimap object in a data-frame style |
| BimapFormatting |
Formatting a Bimap as a list or character vector |
| BOMBYX_MORI |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| BOS_TAURUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| BRANCHIOSTOMA_FLORIDAE |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| BRUGIA_MALAYI |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DANIO_RERIO |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DAPHNIA_PULEX |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| dbconn |
AnnDbObj objects |
| dbConn-method |
AnnotationDb objects and their progeny, methods etc. |
| dbconn-method |
AnnDbObj objects |
| dbfile |
AnnDbObj objects |
| dbfile-method |
AnnDbObj objects |
| dbInfo |
AnnDbObj objects |
| dbInfo-method |
AnnDbObj objects |
| dbmeta |
AnnDbObj objects |
| dbmeta-method |
AnnDbObj objects |
| dbschema |
AnnDbObj objects |
| dbschema-method |
AnnDbObj objects |
| DEBARYOMYCES_HANSENII |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DEFINITION |
Descriptions of available values for 'columns' and 'keytypes' for GO.db. |
| Definition |
Class "GOTerms" |
| Definition-method |
Class "GOTerms" |
| DESCRIPTION |
Descriptions of available values for 'columns' and 'keytypes'. |
| DICTYOSTELIUM_DISCOIDEUM |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| dim-method |
Methods for manipulating a Bimap object in a data-frame style |
| direction |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| direction-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| direction<- |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| direction<--method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| DROSOPHILA_ANANASSAE |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DROSOPHILA_GRIMSHAWI |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DROSOPHILA_MELANOGASTER |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DROSOPHILA_MOJAVENSIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DROSOPHILA_PSEUDOOBSCURA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DROSOPHILA_VIRILIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| DROSOPHILA_WILLISTONI |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| eapply |
Environment-like API for Bimap objects |
| eapply-method |
Environment-like API for Bimap objects |
| ENSEMBL |
Descriptions of available values for 'columns' and 'keytypes'. |
| ENSEMBLPROT |
Descriptions of available values for 'columns' and 'keytypes'. |
| ENSEMBLTRANS |
Descriptions of available values for 'columns' and 'keytypes'. |
| ENTAMOEBA_HISTOLYTICA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| ENTREZID |
Descriptions of available values for 'columns' and 'keytypes'. |
| ENZYME |
Descriptions of available values for 'columns' and 'keytypes'. |
| EQUUS_CABALLUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| ESCHERICHIA_COLIK12 |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| EVIDENCE |
Descriptions of available values for 'columns' and 'keytypes'. |
| EVIDENCEALL |
Descriptions of available values for 'columns' and 'keytypes'. |
| exists |
Environment-like API for Bimap objects |
| exists-method |
Environment-like API for Bimap objects |
| extractSeqnameSet |
List the supported seqname styles for all supported organisms |
| idConverter |
Convenience functions for mapping IDs through an appropriate set of annotation packages |
| initialize-method |
Class "GOTerms" |
| InparanoidDb-class |
AnnotationDb objects and their progeny, methods etc. |
| inpIDMapper |
Convenience functions for mapping IDs through an appropriate set of annotation packages |
| INTERPRO |
Descriptions of available values for 'columns' and 'keytypes'. |
| intraIDMapper |
Convenience functions for mapping IDs through an appropriate set of annotation packages |
| IPI |
Descriptions of available values for 'columns' and 'keytypes'. |
| IpiAnnDbMap |
Bimap objects and the Bimap interface |
| IpiAnnDbMap-class |
Bimap objects and the Bimap interface |
| isNA |
Methods for manipulating the keys of a Bimap object |
| isNA-method |
Methods for manipulating the keys of a Bimap object |
| isSupportedSeqnamesStyle |
List the supported seqname styles for all supported organisms |
| IXODES_SCAPULARIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| LEISHMANIA_MAJOR |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| length-method |
Methods for manipulating the keys of a Bimap object |
| links |
Methods for manipulating a Bimap object in a data-frame style |
| links-method |
Methods for manipulating a Bimap object in a data-frame style |
| listAllSupportedSeqnameStyles |
List the supported seqname styles for all supported organisms |
| listAllSupportedStylesBySpecies |
List the supported seqname styles for all supported organisms |
| Lkeyname |
Methods for manipulating a Bimap object in a data-frame style |
| Lkeyname-method |
Methods for manipulating a Bimap object in a data-frame style |
| Lkeys |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Lkeys-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Lkeys<- |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Lkeys<--method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Llength |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Llength-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| loadDb |
AnnotationDb objects and their progeny, methods etc. |
| loadDb-method |
AnnotationDb objects and their progeny, methods etc. |
| LOTTIA_GIGANTEA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| ls |
Environment-like API for Bimap objects |
| ls-method |
Environment-like API for Bimap objects |
| MACACA_MULATTA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| MAGNAPORTHE_GRISEA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| makeARABIDOPSISCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeBOVINECHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeCANINECHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeCHICKENCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeECOLICHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeFLYCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeGOGraph |
A convenience function to generate graphs based on the GO.db package |
| makeHUMANCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeMOUSECHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makePIGCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeRATCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeRHESUSCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeWORMCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeYEASTCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| makeZEBRAFISHCHIP_DB |
Defunct Functions in Package 'AnnotationDbi' |
| make_eg_to_go_map |
Create GO to Entrez Gene maps for chip-based packages |
| make_go_to_eg_map |
Create GO to Entrez Gene maps for chip-based packages |
| MAP |
Descriptions of available values for 'columns' and 'keytypes'. |
| mappedkeys |
Methods for manipulating the keys of a Bimap object |
| mappedkeys-method |
Methods for manipulating the keys of a Bimap object |
| mappedLkeys |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| mappedLkeys-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| mappedRkeys |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| mappedRkeys-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| metadata-method |
AnnotationDb objects and their progeny, methods etc. |
| mget |
Environment-like API for Bimap objects |
| mget-method |
Environment-like API for Bimap objects |
| MONODELPHIS_DOMESTICA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| MONOSIGA_BREVICOLLIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| MUS_MUSCULUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PAN_TROGLODYTES |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PATH |
Descriptions of available values for 'columns' and 'keytypes'. |
| PEDICULUS_HUMANUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PFAM |
Descriptions of available values for 'columns' and 'keytypes'. |
| PHYSCOMITRELLA_PATENS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PHYTOPHTHORA_RAMORUM |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PHYTOPHTHORA_SOJAE |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PLASMODIUM_FALCIPARUM |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PLASMODIUM_VIVAX |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| PMID |
Descriptions of available values for 'columns' and 'keytypes'. |
| PONGO_PYGMAEUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| POPULUS_TRICHOCARPA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| print.probetable |
Print method for probetable objects |
| PRISTIONCHUS_PACIFICUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| ProbeAnnDbBimap |
Bimap objects and the Bimap interface |
| ProbeAnnDbBimap-class |
Bimap objects and the Bimap interface |
| ProbeAnnDbMap |
Bimap objects and the Bimap interface |
| ProbeAnnDbMap-class |
Bimap objects and the Bimap interface |
| ProbeGo3AnnDbBimap |
Bimap objects and the Bimap interface |
| ProbeGo3AnnDbBimap-class |
Bimap objects and the Bimap interface |
| PROBEID |
Descriptions of available values for 'columns' and 'keytypes'. |
| ProbeIpiAnnDbMap |
Bimap objects and the Bimap interface |
| ProbeIpiAnnDbMap-class |
Bimap objects and the Bimap interface |
| PROSITE |
Descriptions of available values for 'columns' and 'keytypes'. |
| PUCCINIA_GRAMINIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| Rattribnames |
Methods for manipulating a Bimap object in a data-frame style |
| Rattribnames-method |
Methods for manipulating a Bimap object in a data-frame style |
| Rattribnames<- |
Methods for manipulating a Bimap object in a data-frame style |
| Rattribnames<--method |
Methods for manipulating a Bimap object in a data-frame style |
| RATTUS_NORVEGICUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| ReactomeDb-class |
AnnotationDb objects and their progeny, methods etc. |
| REFSEQ |
Descriptions of available values for 'columns' and 'keytypes'. |
| revmap |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| revmap-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| RHIZOPUS_ORYZAE |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| Rkeyname |
Methods for manipulating a Bimap object in a data-frame style |
| Rkeyname-method |
Methods for manipulating a Bimap object in a data-frame style |
| Rkeys |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Rkeys-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Rkeys<- |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Rkeys<--method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Rlength |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| Rlength-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| SACCHAROMYCES_CEREVISIAE |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| sample |
Environment-like API for Bimap objects |
| sample-method |
Environment-like API for Bimap objects |
| saveDb |
AnnotationDb objects and their progeny, methods etc. |
| saveDb-method |
AnnotationDb objects and their progeny, methods etc. |
| SCHISTOSOMA_MANSONI |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| SCHIZOSACCHAROMYCES_POMBE |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| SCLEROTINIA_SCLEROTIORUM |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| Secondary |
Class "GOTerms" |
| Secondary-method |
Class "GOTerms" |
| select |
AnnotationDb objects and their progeny, methods etc. |
| select-method |
AnnotationDb objects and their progeny, methods etc. |
| setInpBimapFilter |
Methods for getting/setting the filters on a Bimap object |
| setInpBimapFilter-method |
Methods for getting/setting the filters on a Bimap object |
| SGD |
Descriptions of available values for 'columns' and 'keytypes'. |
| show-method |
AnnotationDb objects and their progeny, methods etc. |
| show-method |
Methods for manipulating the keys of a Bimap object |
| show-method |
Bimap objects and the Bimap interface |
| show-method |
Class "GOTerms" |
| SMART |
Descriptions of available values for 'columns' and 'keytypes'. |
| SORGHUM_BICOLOR |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| species |
AnnotationDb objects and their progeny, methods etc. |
| species-method |
AnnotationDb objects and their progeny, methods etc. |
| STAGONOSPORA_NODORUM |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| STRONGYLOCENTROTUS_PURPURATUS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| subset |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| subset-method |
Methods for getting/setting the direction of a Bimap object, and undirected methods for getting/counting/setting its keys |
| summary-method |
Bimap objects and the Bimap interface |
| supportedSeqnameMappings |
List the supported seqname styles for all supported organisms |
| supportedSeqnames |
List the supported seqname styles for all supported organisms |
| supportedSeqnameStyles |
List the supported seqname styles for all supported organisms |
| SYMBOL |
Descriptions of available values for 'columns' and 'keytypes'. |
| Synonym |
Class "GOTerms" |
| Synonym-method |
Class "GOTerms" |
| tagname |
Methods for manipulating a Bimap object in a data-frame style |
| tagname-method |
Methods for manipulating a Bimap object in a data-frame style |
| tail |
Methods for manipulating a Bimap object in a data-frame style |
| tail-method |
Methods for manipulating a Bimap object in a data-frame style |
| TAIR |
Descriptions of available values for 'columns' and 'keytypes'. |
| TAKIFUGU_RUBRIPES |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| TERM |
Descriptions of available values for 'columns' and 'keytypes' for GO.db. |
| Term |
Class "GOTerms" |
| Term-method |
Class "GOTerms" |
| testSeqnames |
List the supported seqname styles for all supported organisms |
| TETRAHYMENA_THERMOPHILA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| TETRAODON_NIGROVIRIDIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| THALASSIOSIRA_PSEUDONANA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| THEILERIA_ANNULATA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| THEILERIA_PARVA |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| toggleProbes |
Methods for getting/setting the filters on a Bimap object |
| toggleProbes-method |
Methods for getting/setting the filters on a Bimap object |
| toSQLStringSet |
Convert a vector to a quoted string for use as a SQL value list |
| toTable |
Methods for manipulating a Bimap object in a data-frame style |
| toTable-method |
Methods for manipulating a Bimap object in a data-frame style |
| TRIBOLIUM_CASTANEUM |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| TRICHOMONAS_VAGINALIS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| TRICHOPLAX_ADHAERENS |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |
| TRYPANOSOMA_CRUZI |
Descriptions of available values for 'columns' and 'keytypes' for inparanpoid packages. |