LogNMulti {EBSeq} | R Documentation

## EM algorithm for the NB-beta model in the multiple condition test

### Description

'LogNMulti' specifies the function to run (one round of) the EM algorithm for the NB-beta model in the multiple condition test.

### Usage

    LogNMulti(Input, InputSP, EmpiricalR, EmpiricalRSP,
    	NumOfEachGroup, AlphaIn, BetaIn, PIn,
    	NoneZeroLength, AllParti, Conditions)

### Arguments

`Input, InputSP` | The expressions among all the samples.
`NumOfEachGroup` | Number of genes in each Ng group.
`AlphaIn, PIn, BetaIn, EmpiricalR, EmpiricalRSP` | The parameters from the last EM step.
`NoneZeroLength` | Number of Ng groups.
`AllParti` | The patterns of interests.
`Conditions` | The condition assignment for each sample.

### Author(s)

Ning Leng

### References

Ning Leng, John A. Dawson, James A. Thomson, Victor Ruotti, Anna I. Rissman, Bart M.G. Smits, Jill D. Haag, Michael N. Gould, Ron M. Stewart, and Christina Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments. Bioinformatics (2013)

### Examples

    #

    #Input = matrix(rnorm(100,100,1),ncol=10)
    #rownames(Input) = paste("g",1:10)
    #RIn = matrix(rnorm(100,200,1), ncol=10)
    #res = LogNMulti(Input, list(Input[,1:5], Input[,6:10]),
    #	RIn, list(RIn[,1:5], RIn[,6:10]), 10, .6, .7,
    #	c(.3,.7), 1, rbind(c(1,1), c(1,2)),
    #	as.factor(rep(c("C1","C2"), each=5)))

[Package EBSeq version 1.22.1 Index]