Storing and accessing epitranscriptomic information using the
AnnotationDbi interface
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Documentation for package ‘EpiTxDb’ version 1.21.0
Help Pages
| EpiTxDb-package#' | 'EpiTxDb' - Storing and accessing epitranscriptomic information using the AnnotationDbi interface |
| .EpiTxDb | EpiTxDb objects |
| as.integer-method | Generate integer sequences from position information of 'Ranges' |
| as.list-method | EpiTxDb objects |
| columns | Using the "select" interface on 'EpiTxDb' objects |
| columns-method | Using the "select" interface on 'EpiTxDb' objects |
| downloadRMBaseFiles | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| EpiTxDb | EpiTxDb objects |
| EpiTxDb-class | EpiTxDb objects |
| EpiTxDb-data | EpiTxDb internal data |
| EPITXDB_RMBASE_URL | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| getRMBaseDataAsGRanges | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| gettRNAdbDataAsGRanges | Create a 'EpiTxDb' object from tRNAdb resources |
| keys | Using the "select" interface on 'EpiTxDb' objects |
| keys-method | Using the "select" interface on 'EpiTxDb' objects |
| keytypes | Using the "select" interface on 'EpiTxDb' objects |
| keytypes-method | Using the "select" interface on 'EpiTxDb' objects |
| listAvailableGenomesFromRMBase | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| listAvailableModFromRMBase | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| listAvailableOrganismsFromRMBase | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| listAvailableOrganismsFromtRNAdb | Create a 'EpiTxDb' object from tRNAdb resources |
| makeEpiTxDb | Creating a 'EpiTxDb' from user supplied annotations as 'data.frame's |
| makeEpiTxDbFromGRanges | Create a 'EpiTxDb' object from a 'GRanges' object |
| makeEpiTxDbFromRMBase | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| makeEpiTxDbFromRMBaseFiles | Create a 'EpiTxDb' object from RMBase v2.0 online resources |
| makeEpiTxDbFromtRNAdb | Create a 'EpiTxDb' object from tRNAdb resources |
| modifications | Getting modification data from a 'EpiTxDb-object' |
| modifications-method | Getting modification data from a 'EpiTxDb-object' |
| modificationsBy | Getting modification data from a 'EpiTxDb-object' |
| modificationsBy-method | Getting modification data from a 'EpiTxDb-object' |
| modifiedSeqsByTranscript | Getting modification data from a 'EpiTxDb-object' |
| modifiedSeqsByTranscript-method | Getting modification data from a 'EpiTxDb-object' |
| organism-method | EpiTxDb objects |
| positionSequence | Generate integer sequences from position information of 'Ranges' |
| positionSequence-method | Generate integer sequences from position information of 'Ranges' |
| rescale | Rescaling 'Ranges' object |
| rescale-method | Rescaling 'Ranges' object |
| rmbase_data | EpiTxDb internal data |
| select | Using the "select" interface on 'EpiTxDb' objects |
| select-method | Using the "select" interface on 'EpiTxDb' objects |
| seqinfo-method | EpiTxDb objects |
| seqlevels-method | EpiTxDb objects |
| shiftGenomicToTranscript | Shift 'GRanges' coordinates based on another 'GRanges' object |
| shiftGenomicToTranscript-method | Shift 'GRanges' coordinates based on another 'GRanges' object |
| shiftTranscriptToGenomic | Shift 'GRanges' coordinates based on another 'GRanges' object |
| shiftTranscriptToGenomic-method | Shift 'GRanges' coordinates based on another 'GRanges' object |