recount3
This is the development version of recount3; for the stable release version, see recount3.
Explore and download data from the recount3 project
Bioconductor version: Development (3.20)
The recount3 package enables access to a large amount of uniformly processed RNA-seq data from human and mouse. You can download RangedSummarizedExperiment objects at the gene, exon or exon-exon junctions level with sample metadata and QC statistics. In addition we provide access to sample coverage BigWig files.
Author: Leonardo Collado-Torres [aut, cre]
Maintainer: Leonardo Collado-Torres <lcolladotor at gmail.com>
citation("recount3")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("recount3")
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("recount3")
recount3 quick start guide | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Coverage, DataImport, DifferentialExpression, GeneExpression, RNASeq, Sequencing, Software |
Version | 1.15.0 |
In Bioconductor since | BioC 3.12 (R-4.0) (4 years) |
License | Artistic-2.0 |
Depends | SummarizedExperiment |
Imports | BiocFileCache, methods, rtracklayer, S4Vectors, utils, httr, data.table, R.utils, Matrix, GenomicRanges, sessioninfo, tools |
System Requirements | |
URL | https://github.com/LieberInstitute/recount3 |
Bug Reports | https://github.com/LieberInstitute/recount3/issues |
See More
Suggests | BiocStyle, covr, knitcitations, knitr, RefManageR, rmarkdown, testthat, pryr, interactiveDisplayBase, recount |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | RNAseqQC |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | recount3_1.15.0.tar.gz |
Windows Binary | recount3_1.15.0.zip |
macOS Binary (x86_64) | recount3_1.15.0.tgz |
macOS Binary (arm64) | recount3_1.15.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/recount3 |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/recount3 |
Bioc Package Browser | https://code.bioconductor.org/browse/recount3/ |
Package Short Url | https://bioconductor.org/packages/recount3/ |
Package Downloads Report | Download Stats |