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EpiTxDb

Storing and accessing epitranscriptomic information using the AnnotationDbi interface

Bioconductor version: 3.23 · Package version: 1.24.0

EpiTxDb facilitates the storage of epitranscriptomic information. More specifically, it can keep track of modification identity, position, the enzyme for introducing it on the RNA, a specifier which determines the position on the RNA to be modified and the literature references each modification is associated with.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("EpiTxDb")

Details

MaintainerFelix G.M. Ernst <felix.gm.ernst@outlook.com>
AuthorFelix G.M. Ernst [aut, cre] (ORCID: <https://orcid.org/0000-0001-5064-0928>)
LicenseArtistic-2.0
URLhttps://github.com/FelixErnst/EpiTxDb
Bug Reportshttps://github.com/FelixErnst/EpiTxDb/issues
Downloads rank318
Source branchRELEASE_3_23
biocViewsEpitranscriptomics, Software

Documentation

Download

Dependencies

Depends: R (>= 4.0), AnnotationDbi, Modstrings

Imports: methods, utils, httr, xml2, curl, rex, GenomicFeatures, txdbmaker, GenomicRanges, Seqinfo, BiocGenerics, BiocFileCache, S4Vectors, IRanges, RSQLite, DBI, Biostrings, tRNAdbImport

Suggests: BiocStyle, knitr, rmarkdown, testthat, httptest, AnnotationHub, ensembldb, ggplot2, EpiTxDb.Hs.hg38, BSgenome.Hsapiens.UCSC.hg38, BSgenome.Scerevisiae.UCSC.sacCer3, TxDb.Hsapiens.UCSC.hg38.knownGene

Reverse dependencies

Depends On Me (3): EpiTxDb.Hs.hg38, EpiTxDb.Mm.mm10, EpiTxDb.Sc.sacCer3