NanoStringDiff

DOI: 10.18129/B9.bioc.NanoStringDiff    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see NanoStringDiff.

Differential Expression Analysis of NanoString nCounter Data

Bioconductor version: 3.8

This Package utilizes a generalized linear model(GLM) of the negative binomial family to characterize count data and allows for multi-factor design. NanoStrongDiff incorporate size factors, calculated from positive controls and housekeeping controls, and background level, obtained from negative controls, in the model framework so that all the normalization information provided by NanoString nCounter Analyzer is fully utilized.

Author: hong wang <hong.wang at uky.edu>, tingting zhai <tingting.zhai at uky.edu>, chi wang <chi.wang at uky.edu>

Maintainer: tingting zhai <tingting.zhai at uky.edu>,hong wang <hong.wang at uky.edu>

Installation

To install this package, start R (version "3.5") and enter:

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

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("NanoStringDiff")

 

PDF	R Script	NanoStringDiff Vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, Normalization, Software
Version	1.12.0
In Bioconductor since	BioC 3.2 (R-3.2) (3.5 years)
License	GPL
Depends	Biobase
Imports	matrixStats, methods, Rcpp
LinkingTo	Rcpp
Suggests	testthat, BiocStyle
SystemRequirements
Enhances
URL
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	NanoStringDiff_1.12.0.tar.gz
Windows Binary	NanoStringDiff_1.12.0.zip
Mac OS X 10.11 (El Capitan)	NanoStringDiff_1.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/NanoStringDiff
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/NanoStringDiff
Package Short Url	http://bioconductor.org/packages/NanoStringDiff/
Package Downloads Report	Download Stats