ERSSA

DOI: 10.18129/B9.bioc.ERSSA    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ERSSA.

Empirical RNA-seq Sample Size Analysis

Bioconductor version: 3.9

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>

Installation

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

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

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")

 

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

Details

biocViews	DifferentialExpression, GeneExpression, ImmunoOncology, MultipleComparison, QualityControl, RNASeq, Software, Transcription
Version	1.2.0
In Bioconductor since	BioC 3.8 (R-3.5) (1 year)
License	GPL-3 | file LICENSE
Depends	R (>= 3.5.0)
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), grDevices, stats, utils
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/zshao1/ERSSA
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	ERSSA_1.2.0.tar.gz
Windows Binary	ERSSA_1.2.0.zip
Mac OS X 10.11 (El Capitan)	ERSSA_1.2.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ERSSA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ERSSA
Package Short Url	https://bioconductor.org/packages/ERSSA/
Package Downloads Report	Download Stats