two.stage: A p-value procedure which controls the FDR for independent...

In mutoss: Unified Multiple Testing Procedures

A p-value procedure which controls the FDR for independent test statistics.

Description

A p-value procedure which controls the FDR for independent test statistics.

Usage

two.stage(pValues, alpha)

Arguments

pValues	A numeric vecor of p-values.
alpha	The FDR error rate to control.

Details

In the Benjamini-Krieger-Yekutieli two-stage procedure the linear step-up procedure is used in stage one to estimate m0 which is re-plugged in a linear step-up. This procedure is more powerful then non-adaptive procedures, while still controlling the FDR. On the other hand, error control is not guaranteed under dependence in which case more conservative procedures should be used (e.g. BH).

Value

A list containing:

rejected	A logical vector indicating which hypotheses are rejected
criticalValues	A numeric vector containing critical values used in the step-up-down test.
adjPValues	A numeric vector containing adjusted p-values.
pi0	An estimate of the proportion of true null hypotheses among all hypotheses (pi0=m0/m).
errorControl	A Mutoss S4 class of type errorControl, containing the type of error controlled by the function and the level alpha.

Author(s)

JonathanRosenblatt

Examples

pvals<- runif(100)^2
two.stage(pvals, 0.1)

mutoss documentation built on March 31, 2023, 8:46 p.m.