setFDRfunc: estimate and store function relating association scores to...

In gQTLstats: gQTLstats: computationally efficient analysis for eQTL and allied studies

Description

estimate and store function relating association scores to approximate plug-in FDR

Usage

setFDRfunc(FDRsupp, fudge = 1e-06, zthresh = 30, maxch = 30, ...)

Arguments

FDRsupp	instance of FDRsupp-class
fudge	if FDR is zero, a log or logistic transform will fail; we add the small positive number fudge to avoid this
zthresh	for association scores greater than this value, a hard value of FDR 0 is assigned
maxch	the model for the functional relationship between association and FDR is subset to observations for which association chisq score is no greater than 1.1*maxch
...	arguments passed to s for the smooth model relating association score to FDR at selected quantiles of the association score distribution

Value

returns an updated FDRsupp-class instance

Examples

data(filtFDR)
filtFDR2 = setFDRfunc(filtFDR)

gQTLstats documentation built on Nov. 8, 2020, 7:53 p.m.