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>
citation("ERSSA")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("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")| ERSSA Package Introduction | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, ImmunoOncology, MultipleComparison, QualityControl, RNASeq, Software, Transcription |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.8 (R-3.5) (5.5 years) |
| 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 |
| System Requirements | |
| URL | https://github.com/zshao1/ERSSA |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| 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 | 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 |
| Bioc Package Browser | https://code.bioconductor.org/browse/ERSSA/ |
| Package Short Url | https://bioconductor.org/packages/ERSSA/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |