LikefunNBHMM: Likelihood function of the Beta-Negative Binomial HMM Model

In EBSeqHMM: Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments

Description

Likelihood function of the Beta-Negative Binomial HMM Model

Usage

LikefunNBHMM(ParamPool, InputPool)

Arguments

ParamPool	The parameters that will be estimated in EM.
InputPool	The control parameters that will not be estimated in EM

Details

The likelihood function of the Beta-Negative Binomial HMM model used in EBSeqHMM. EBSeqHMM uses optim() function to obtain the optimal estimates that minimizes the likelihood.

Value

optimal estimates of the parameters of interest

Author(s)

Ning Leng

Examples

data(GeneExampleData)
tmp <- GeneExampleData[1:10,]
In <- list(tmp,1,5,10,3,tmp,rep(1,15),as.factor(rep(1:5,each=3)), 10,cbind(rep(.5,10),rep(1,10),rep(2,10)))
Start <- c(1,1)
LikefunNBHMM(Start,In)

EBSeqHMM documentation built on Nov. 8, 2020, 5:22 p.m.