pprob.uniform: Bayesian diagnostic test for multiple testing p-values.

In dks: The double Kolmogorov-Smirnov package for evaluating multiple testing procedures.

Description

This function accepts a vector of simulated null p-values from a single simulated study. The null p-values should representa subset of all the simulated p-values corresponding to the tests with no signal.

Usage

  pprob.uniform(p,alpha=c(0.1,10),beta=c(0.1,10),eps=1e-10)

Arguments

p	An vector of null p-values from a single simulated study.
alpha	The range of the first parameter for the prior on the beta distribution.
beta	The range of the second parameter for the prior on the beta distribution.
eps	Maximum integration error when computing the posterior distribution.

Details

The pprob.uniform function calculates the posterior probability that a set of null p-values come from the uniform distribution as described in Leek and Storey (2009). The p-values should be simulated from a realistic distribution and only the null p-values should be passed to the pprob.uniform function.

Value

pp	The posterior probability that p is a sample from the uniform distribution.

Author(s)

Jeffrey T. Leek [e-mail]

References

J.T. Leek and J.D. Storey, "The Joint Null Distribution of Multiple Hypothesis Tests."

See Also

dks, dks.pvalue, pprob.dist,cred.set

Examples

  ## Load data
  data(dksdata) 
  pp <- pprob.uniform(P[,1])
  hist(pp)

dks documentation built on Nov. 8, 2020, 5:40 p.m.