exactTestNB {edgeR}R Documentation

An exact test for differences between two negative binomial groups

Description

An exact test for differences between two negative binomial groups

Usage

 
exactTestNB(pseudo, group, pair=1:2, mus, r, verbose=TRUE)

Arguments

pseudo data (e.g. quantile adjusted pseudodata) on which to compute Fisher exact statistics
group group indicator, must be same length as ncol(pseudo)
pair pair of groups to be compared
mus vector of means under the null hypothesis (of no difference between groups)
r preset or estimated negative binomial size parameter. If you want to run a Poisson test, set r very large (e.g. 1000)
verbose whether to write comments, default TRUE

Value

vector of p-values

Author(s)

Mark Robinson, Davis McCarthy

Examples

y<-matrix(rnbinom(20,mu=10,size=1.5),nrow=5)
group<-factor(c(1,1,2,2))
mus<-rep(10,5)
f<-exactTestNB(y,group,pair=c(1,2),mus,r=1.5)

[Package edgeR version 1.2.4 Index]