metaseqR
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 metaseqR (see replacement metaseqR2).
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms.
Bioconductor version: 3.7
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 <moulos at fleming.gr>
Maintainer: Panagiotis Moulos <moulos at fleming.gr>
citation("metaseqR")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("metaseqR")
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("metaseqR")| RNA-Seq data analysis using mulitple statistical algorithms with metaseqR | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, Normalization, Preprocessing, QualityControl, RNASeq, ReportWriting, Software, WorkflowStep |
| Version | 1.20.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (10 years) |
| License | GPL (>= 3) |
| Depends | R (>= 2.13.0), EDASeq, DESeq, limma, qvalue |
| Imports | edgeR, NOISeq, baySeq, NBPSeq, biomaRt, utils, gplots, corrplot, vsn, brew, rjson, log4r |
| System Requirements | |
| URL | http://www.fleming.gr |
See More
| Suggests | BiocGenerics, GenomicRanges, rtracklayer, Rsamtools, survcomp, VennDiagram, knitr, zoo, RUnit, BiocInstaller, BSgenome, RSQLite |
| Linking To | |
| Enhances | parallel, TCC, RMySQL |
| 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 | metaseqR_1.20.0.tar.gz |
| Windows Binary | metaseqR_1.20.0.zip |
| Mac OS X 10.11 (El Capitan) | metaseqR_1.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/metaseqR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/metaseqR |
| Package Short Url | https://bioconductor.org/packages/metaseqR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.7 | Source Archive |