RNAprobR
This package is for version 3.7 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: 3.7
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 [aut], Nikos Sidiropoulos [cre, aut], Jeppe Vinther [aut]
Maintainer: Nikos Sidiropoulos <nikos.sidiro at gmail.com>
citation("RNAprobR")):
Installation
To install this package, start R (version "3.5") 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
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RNAprobR")| RNAprobR: An R package for analysis of the massive parallel sequencing based methods of RNA structure probing | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Coverage, GenomeAnnotation, Normalization, Sequencing, Software |
| Version | 1.12.0 |
| 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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| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | RNAprobR_1.12.0.tar.gz |
| Windows Binary | RNAprobR_1.12.0.zip |
| Mac OS X 10.11 (El Capitan) | RNAprobR_1.12.0.tgz |
| 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 3.7 | Source Archive |