smgBinomPoweredEffectSize: Calculates the minimum effect size (with sufficient power) of...

In KarchinLab/cancerSeqStudy: Power and False Positive Analysis of Cancer Sequencing Studies

Description

Effect size is measures as the fraction of sample/patient cancers with a non-silent mutation in a driver gene above the background mutation rate.

Usage

smgBinomPoweredEffectSize(possible.effect.sizes, desired.power, mu, samp.size,
  signif.level = 5e-06, Leff = 1500 * 3/4)

Arguments

possible.effect.sizes	vector of effect sizes
desired.power	A floating point number indicating desired power
mu	Mutation rate per base
samp.size	number of cancer samples in study
signif.level	significance level for binomial test
Leff	effective gene length of CDS in bases for an average gene

Value

List containing the smallest effect size with sufficient power

KarchinLab/cancerSeqStudy documentation built on May 8, 2019, 4:47 p.m.