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NanoStringDiff (version 1.2.0)

Differential Expression Analysis of NanoString nCounter Data

Description

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.

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Version

Version

1.2.0

License

GPL

Maintainer

hong wang

Last Published

February 15th, 2017

Functions in NanoStringDiff (1.2.0)

negativeFactor

Acessor functions for the 'negativeFactor' slot in a NanoStringSet object.
glm.LRT

perform gene-wise likelihood ratio test for NanoString Data
positiveControl

Acessor functions for the 'positiveControl' slot in a NanoStringSet object.
housekeepingFactor

Acessor functions for the 'housekeepingFactor' slot in a NanoStringSet object.
NanoStringDiff-package

NanoStringDiff package for differential expression analysis of NanoString nCounter data
housekeepingControl

Acessor functions for the 'housekeepingControl' slot in a NanoStringSet object.
positiveFactor

Acessor functions for the 'positiveFactor' slot in a NanoStringSet object.
NanoStringSet-class

NanoStringSet object and constructors
NanoStringData

A real 'NanoStringSet' object.
estNormalizationFactors

estimate normalization factors,include positive size factors, background noise, housekeeping size factors.
negativeControl

Acessor functions for the 'negativeControl' slot in a NanoStringSet object.