The purpose of this package is to discover the genes that are differentially expressed between two conditions in RNAseq experiments. Gene expression is measured in counts of transcripts and modeled with the Negative Binomial (NB) distribution using a shrinkage approach for dispersion estimation. The method of moment (MM) estimates for dispersion are shrunk towards an estimated target, which minimizes the average squared difference between the shrinkage estimates and the initial estimates. The exact pergene probability under the NB model is calculated, and used to test the hypothesis that the expected expression of a gene in two conditions identically follow a NB distribution.
Package details 


Author  Danni Yu <dyu@purdue.edu>, Wolfgang Huber <whuber@embl.de> and Olga Vitek <ovitek@purdue.edu> 
Bioconductor views  RNASeq 
Maintainer  Danni Yu <dyu@purdue.edu> 
License  GPL (>= 3) 
Version  1.14.0 
Package repository  View on Bioconductor 
Installation 
Install the latest version of this package by entering the following in R:

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