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ERSSA

This is the development version of ERSSA; for the stable release version, see ERSSA.

Empirical RNA-seq Sample Size Analysis

Bioconductor version: Development (3.18)

The ERSSA package takes user supplied RNA-seq differential expression dataset and calculates the number of differentially expressed genes at varying biological replicate levels. This allows the user to determine, without relying on any a priori assumptions, whether sufficient differential detection has been acheived with their RNA-seq dataset.

Author: Zixuan Shao [aut, cre]

Maintainer: Zixuan Shao <Zixuanshao.zach at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("ERSSA")

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("ERSSA")
ERSSA Package Introduction HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews DifferentialExpression, GeneExpression, ImmunoOncology, MultipleComparison, QualityControl, RNASeq, Software, Transcription
Version 1.19.1
In Bioconductor since BioC 3.8 (R-3.5) (5 years)
License GPL-3 | file LICENSE
Depends R (>= 4.0.0)
Imports edgeR(>= 3.23.3), DESeq2(>= 1.21.16), ggplot2 (>= 3.0.0), RColorBrewer (>= 1.1-2), plyr (>= 1.8.4), BiocParallel(>= 1.15.8), apeglm(>= 1.4.2), grDevices, stats, utils
Linking To
Suggests BiocStyle, knitr, rmarkdown
System Requirements
Enhances
URL https://github.com/zshao1/ERSSA
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Package Archives

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

Source Package ERSSA_1.19.1.tar.gz
Windows Binary ERSSA_1.19.1.zip (64-bit only)
macOS Binary (x86_64) ERSSA_1.19.1.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/ERSSA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ERSSA
Bioc Package Browser https://code.bioconductor.org/browse/ERSSA/
Package Short Url https://bioconductor.org/packages/ERSSA/
Package Downloads Report Download Stats