RNAprobR
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see RNAprobR.
An R package for analysis of massive parallel sequencing based RNA structure probing data
Bioconductor version: 3.13
This package facilitates analysis of Next Generation Sequencing data for which positional information with a single nucleotide resolution is a key. It allows for applying different types of relevant normalizations, data visualization and export in a table or UCSC compatible bedgraph file.
Author: Lukasz Jan Kielpinski <kielpinski at bio.ku.dk>, Nikos Sidiropoulos <nikos.sidiro at gmail.com>, Jeppe Vinther <jvinther at bio.ku.dk>
Maintainer: Nikos Sidiropoulos <nikos.sidiro at gmail.com>
citation("RNAprobR")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RNAprobR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | Coverage, GenomeAnnotation, Normalization, Sequencing, Software |
| Version | 1.24.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9 years) |
| License | GPL (>=2) |
| Depends | R (>= 3.1.1), GenomicFeatures(>= 1.16.3), plyr (>= 1.8.1), BiocGenerics(>= 0.10.0) |
| Imports | Biostrings(>= 2.32.1), GenomicRanges(>= 1.16.4), IRanges(>= 2.10.5), Rsamtools(>= 1.16.1), rtracklayer(>= 1.24.2), GenomicAlignments(>= 1.5.12), S4Vectors(>= 0.14.7), graphics, stats, utils |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary | |
| macOS 10.13 (High Sierra) | |
| Source Repository | git clone https://git.bioconductor.org/packages/RNAprobR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RNAprobR |
| Package Short Url | https://bioconductor.org/packages/RNAprobR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.13 | Source Archive |