NanoStringDiff

This is the released version of NanoStringDiff; for the devel version, see NanoStringDiff.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2

Differential Expression Analysis of NanoString nCounter Data

Bioconductor version: Release (3.23)

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")):

hong wang, tingting zhai, chi wang. NanoStringDiff: Differential Expression Analysis of NanoString nCounter Data. doi:10.18129/B9.bioc.NanoStringDiff, R package version 1.42.0, https://bioconductor.org/packages/NanoStringDiff.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("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")

NanoStringDiff Vignette	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, Normalization, Software
Version	1.42.0
In Bioconductor since	BioC 3.2 (R-3.2) (11 years)
License	GPL
Depends	Biobase
Imports	matrixStats, methods, Rcpp
System Requirements
URL

Suggests	testthat, BiocStyle
Linking To	Rcpp
Enhances
Depends On Me
Imports Me
Suggests Me	NanoTube
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	NanoStringDiff_1.42.0.tar.gz
Windows Binary (x86_64)	NanoStringDiff_1.42.0.zip
macOS Binary (big-sur-x86_64)	NanoStringDiff_1.42.0.tgz
macOS Binary (sonoma-arm64)	NanoStringDiff_1.42.0.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	https://bioconductor.org/packages/NanoStringDiff/
Package Downloads Report	Download Stats