BioNet (version 1.32.0)

fdrThreshold: Calculate p-value threshold for given FDR

Description

The function calculates the p-value threshold tau for a given false discovery rate. Tau is used for the scoring function.

Usage

fdrThreshold(fdr, fb)

Arguments

fdr

False discovery rate.

fb

Model from the beta-uniform mixture fitting.

Value

P-value threshold tau.

References

S. Pounds, S.W. Morris (2003) Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values. Bioinformatics, 19(10): 1236-1242.

See Also

fbum, fitBumModel

Examples

data(pvaluesExample)
pvals <- pvaluesExample[,1]
bum.mle <- fitBumModel(pvals, plot=FALSE)
tau <- fdrThreshold(fdr=0.001, fb=bum.mle)
tau