# Storing and accessing epitranscriptomic information using the AnnotationDbi interface

## Documentation for package ‘EpiTxDb’ version 1.4.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## 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