EDDA
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 EDDA.
Experimental Design in Differential Abundance analysis
Bioconductor version: 3.7
EDDA can aid in the design of a range of common experiments such as RNA-seq, Nanostring assays, RIP-seq and Metagenomic sequencing, and enables researchers to comprehensively investigate the impact of experimental decisions on the ability to detect differential abundance. This work was published on 3 December 2014 at Genome Biology under the title "The importance of study design for detecting differentially abundant features in high-throughput experiments" (http://genomebiology.com/2014/15/12/527).
Author: Li Juntao, Luo Huaien, Chia Kuan Hui Burton, Niranjan Nagarajan
Maintainer: Chia Kuan Hui Burton <chiakhb at gis.a-star.edu.sg>, Niranjan Nagarajan <nagarajann at gis.a-star.edu.sg>
citation("EDDA")
):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EDDA")
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("EDDA")
EDDA Vignette | |
Reference Manual | |
NEWS | Text |
Details
biocViews | ChIPSeq, ExperimentalDesign, Normalization, RNASeq, Sequencing, Software |
Version | 1.18.0 |
In Bioconductor since | BioC 2.14 (R-3.1) (10 years) |
License | GPL (>= 2) |
Depends | Rcpp (>= 0.10.4), parallel, methods, ROCR, DESeq, baySeq, snow, edgeR |
Imports | graphics, stats, utils, parallel, methods, ROCR, DESeq, baySeq, snow, edgeR |
System Requirements | |
URL | http://edda.gis.a-star.edu.sg/ http://genomebiology.com/2014/15/12/527 |
See More
Suggests | |
Linking To | Rcpp |
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 | EDDA_1.18.0.tar.gz |
Windows Binary | EDDA_1.18.0.zip (32- & 64-bit) |
Mac OS X 10.11 (El Capitan) | EDDA_1.18.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/EDDA |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/EDDA |
Package Short Url | https://bioconductor.org/packages/EDDA/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.7 | Source Archive |