mFDP (version 0.2.1)

get.kappa.max: Based on a vector of raw p-values, compute kappa.max, which defines the mFDP envelope

Description

Based on a vector of unadjusted(!) p-values, compute kappa.max, which together with c defines the mFDP envelope

Usage

get.kappa.max(P, c="1/(2m)", s1=0, s2=0.1)

Value

kappa.max, which together with c defines the mFDP envelope.

Arguments

P

A vector of p-values.

c

The tuning parameter, which influences the intercept and slope of the enveloppe. Should either be numeric or "1/(2m)" or "1/m".

s1

The smallest p-value threshold of interest. Non-negative.

s2

The largest p-value threshold of interest. Should be larger than s1 and at most 1.

Examples

set.seed(5193)

### Make some p-values
m=500        #the nr of hypotheses
nrfalse=100  #the nr of false hypotheses

tstats = rnorm(n=m)   #m test statistics
tstats[1:nrfalse] = tstats[1:nrfalse] + 3    #add some signal
P = 1 - pnorm(tstats)                        #compute p-values

### Compute kappa.max. (Taking c to be the default value 1/(2m).)
kappa.max = get.kappa.max(P=P)
kappa.max