Differential Exon Usage Test for RNA-Seq Data via Empirical Bayes Shrinkage of the Dispersion Parameter

Documentation for package ‘DoubleExpSeq’ version 1.1

DoubleExpSeq-package	DoubleExpSeq is a package with application to RNA-Seq experiments that tests for differential exon usage.
counts	Exon Inclusion Counts
DB.MAPlot	Plots Log-Fold Change versus Log-Concentration for Inclusion/Exclusion Data
DBGLM1	Double Binomial Generalized Linear Model with Shrinkage of the Dispersion Parameter
DoubleExpSeq	DoubleExpSeq is a package with application to RNA-Seq experiments that tests for differential exon usage.
EstimateDEBDisp	DEB-Seq: Empirical Bayes Estimates of Dispersion for a Double Binomial Distribution
EstimateWEBDisp	WEB-Seq: Weighted Likelihood Empirical Bayes Estimates of Dispersion for a Double Binomial Distribution
exon	Toy Exon Inclusion and Total Counts Used for Examples
groups	Group Structure of the Toy Data Set
offsets	Exon Total Counts
optimPlot	Plot the WEB-Seq Maximum Likelihood Solution for the Weight Parameter in the Weighted Likelihood