NanoStringDiff: Differential Expression Analysis of NanoString nCounter Data

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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("NanoStringDiff")
Authorhong wang <hong.wang@uky.edu>, chi wang <chi.wang@uky.edu>
Bioconductor views DifferentialExpression Normalization
Date of publicationNone
Maintainerhong wang <hong.wang@uky.edu>
LicenseGPL
Version1.4.0

View on Bioconductor

Functions

createNanoStringSet Man page
createNanoStringSetFromCsv Man page
estNormalizationFactors Man page
estNormalizationFactors,estNormalizationFactors-method Man page
glm.LRT Man page
glm.LRT,NanoStringSet-method Man page
housekeepingControl Man page
housekeepingControl<- Man page
housekeepingControl<-,NanoStringSet,matrix-method Man page
housekeepingControl,NanoStringSet-method Man page
housekeepingFactor Man page
housekeepingFactor<- Man page
housekeepingFactor,NanoStringSet-method Man page
housekeepingFactor<-,NanoStringSet,numeric-method Man page
NanoStringData Man page
NanoStringDiff Man page
NanoStringDiff-package Man page
NanoStringSet Man page
NanoStringSet-class Man page
negativeControl Man page
negativeControl<- Man page
negativeControl<-,NanoStringSet,matrix-method Man page
negativeControl,NanoStringSet-method Man page
negativeFactor Man page
negativeFactor<- Man page
negativeFactor,NanoStringSet-method Man page
negativeFactor<-,NanoStringSet,numeric-method Man page
positiveControl Man page
positiveControl<- Man page
positiveControl<-,NanoStringSet,matrix-method Man page
positiveControl,NanoStringSet-method Man page
positiveFactor Man page
positiveFactor<- Man page
positiveFactor,NanoStringSet-method Man page
positiveFactor<-,NanoStringSet,numeric-method Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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