omega: Omega calcularion

In NBBttest: Negative Binomial Beta t-Test

Omega calcularion

Description

Omega function is a function that is used to estimate omega using simulate null data from negative bionomial distribution. is a null rho that is used as a threshold for real rho. Simulation is dependent on the original data.

Usage

omega(XX, nci, r1, r2, sn, alpha = 0.05)

Arguments

XX	the real dataset.
nci	number of columns for information of data, like gene id, isoform id, gene name, etc.
r1	size of sample 1 or number of replicates in condition 1.
r2	size of sample 2 or number of replicates in condition 2.
sn	number of simulations specified.
alpha	significance level of test. Default value is 0.05.

Details

This function is to use null data to calculate omega value with rho = 1.

Value

return a numeric value.

Author(s)

Yuan-De Tan [e-mail]

References

Yuan-De Tan Anita M. Chandler, Arindam Chaudhury, and Joel R. Neilson(2015) A Powerful Statistical Approach for Large-scale Differential Transcription Analysis. Plos One. 2015 DOI: 10.1371/journal.pone.0123658.

See Also

pratio and oddratio

Examples

data(jkttcell)	

w<-omega(XX=jkttcell[1:100,],nci=7,r1=3,r2=3,sn=2,alpha=0.05)	

NBBttest documentation built on May 30, 2022, 1:05 a.m.