rnaseqcomp

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see rnaseqcomp.

Benchmarks for RNA-seq Quantification Pipelines

Bioconductor version: 3.10

Several quantitative and visualized benchmarks for RNA-seq quantification pipelines. Two-condition quantifications for genes, transcripts, junctions or exons by each pipeline with necessary meta information should be organized into numeric matrices in order to proceed the evaluation.

Author: Mingxiang Teng and Rafael A. Irizarry

Maintainer: Mingxiang Teng <tengmx at gmail.com>

Citation (from within R, enter citation("rnaseqcomp")):

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("rnaseqcomp")

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("rnaseqcomp")

The rnaseqcomp user's guide PDF R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews QualityControl, RNASeq, Software, Visualization

Version 1.16.0

In Bioconductor since BioC 3.2 (R-3.2) (8.5 years)

License GPL-3

Depends R (>= 3.2.0)

Imports RColorBrewer, methods

System Requirements

URL https://github.com/tengmx/rnaseqcomp

Suggests BiocStyle, knitr, rmarkdown

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me SummarizedBenchmark

Links To Me

Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package rnaseqcomp_1.16.0.tar.gz

Windows Binary rnaseqcomp_1.16.0.zip

Mac OS X 10.11 (El Capitan) rnaseqcomp_1.16.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/rnaseqcomp

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rnaseqcomp

Bioc Package Browser https://code.bioconductor.org/browse/rnaseqcomp/

Package Short Url https://bioconductor.org/packages/rnaseqcomp/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.10 Source Archive