metaseqR2
This is the released version of metaseqR2; for the devel version, see metaseqR2.
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
Bioconductor version: Release (3.23)
Provides an interface to several normalization and statistical testing packages for RNA-Seq gene expression data. Additionally, it creates several diagnostic plots, performs meta-analysis by combinining the results of several statistical tests and reports the results in an interactive way.
Author: Panagiotis Moulos [aut, cre]
Maintainer: Panagiotis Moulos <moulos at fleming.gr>
citation("metaseqR2")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("metaseqR2")
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("metaseqR2")| Building an annotation database for metaseqR2 | HTML | R Script |
| RNA-Seq data analysis with metaseqR2 | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
See More
| Suggests | BiocStyle, BiocManager, BSgenome, knitr, RMySQL, RUnit |
| Linking To | |
| Enhances | TCC |
| Depends On Me | |
| 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 | metaseqR2_1.24.0.tar.gz |
| Windows Binary (x86_64) | metaseqR2_1.24.0.zip |
| macOS Binary (big-sur-x86_64) | metaseqR2_1.24.0.tgz |
| macOS Binary (sonoma-arm64) | metaseqR2_1.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/metaseqR2 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/metaseqR2 |
| Bioc Package Browser | https://code.bioconductor.org/browse/metaseqR2/ |
| Package Short Url | https://bioconductor.org/packages/metaseqR2/ |
| Package Downloads Report | Download Stats |