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NanoStringDiff

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

Differential Expression Analysis of NanoString nCounter Data


Bioconductor version: Development (3.19)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


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

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

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")
NanoStringDiff Vignette PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews DifferentialExpression, Normalization, Software
Version 1.33.0
In Bioconductor since BioC 3.2 (R-3.2) (8.5 years)
License GPL
Depends Biobase
Imports matrixStats, methods, Rcpp
System Requirements
URL
See More
Suggests testthat, BiocStyle
Linking To Rcpp
Enhances
Depends On Me
Imports Me
Suggests Me NanoTube
Links To Me
Build Report Build Report

Package Archives

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

Source Package NanoStringDiff_1.33.0.tar.gz
Windows Binary NanoStringDiff_1.33.0.zip
macOS Binary (x86_64) NanoStringDiff_1.33.0.tgz
macOS Binary (arm64) NanoStringDiff_1.33.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/NanoStringDiff
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/NanoStringDiff
Bioc Package Browser https://code.bioconductor.org/browse/NanoStringDiff/
Package Short Url https://bioconductor.org/packages/NanoStringDiff/
Package Downloads Report Download Stats