EpiTxDb
This is the development version of EpiTxDb; for the stable release version, see EpiTxDb.
Storing and accessing epitranscriptomic information using the AnnotationDbi interface
Bioconductor version: Development (3.21)
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.
Author: Felix G.M. Ernst [aut, cre] (ORCID:
Maintainer: Felix G.M. Ernst <felix.gm.ernst at outlook.com>
citation("EpiTxDb")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("EpiTxDb")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("EpiTxDb")| EpiTxDb | HTML | R Script |
| EpiTxDb-creation | HTML | R Script |
| Reference Manual |
Details
| biocViews | Epitranscriptomics, Software |
| Version | 1.19.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.0), AnnotationDbi, Modstrings |
| Imports | methods, utils, httr, xml2, curl, rex, GenomicFeatures, txdbmaker, GenomicRanges, GenomeInfoDb, BiocGenerics, BiocFileCache, S4Vectors, IRanges, RSQLite, DBI, Biostrings, tRNAdbImport |
| System Requirements | |
| URL | https://github.com/FelixErnst/EpiTxDb |
| Bug Reports | https://github.com/FelixErnst/EpiTxDb/issues |
See More
| 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 |
| Linking To | |
| Enhances | |
| Depends On Me | EpiTxDb.Hs.hg38, EpiTxDb.Mm.mm10, EpiTxDb.Sc.sacCer3 |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | EpiTxDb_1.19.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/EpiTxDb |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/EpiTxDb |
| Bioc Package Browser | https://code.bioconductor.org/browse/EpiTxDb/ |
| Package Short Url | https://bioconductor.org/packages/EpiTxDb/ |
| Package Downloads Report | Download Stats |