fdrThreshold: Calculate p-value threshold for given FDR

Description Usage Arguments Value Author(s) References See Also Examples

Description

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

Usage

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fdrThreshold(fdr, fb)

Arguments

fdr

False discovery rate.

fb

Model from the beta-uniform mixture fitting.

Value

P-value threshold tau.

Author(s)

Marcus Dittrich

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

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


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