pwrEWAS_deltaDensity: Density plot for simulated differences in mean methylation

In stefangraw/pwrEWAS: A user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS)

Description

pwrEWAS_deltaDensity create a density plot of the simulated differences in mean methylation for different effect sizes

Usage

pwrEWAS_deltaDensity(data, detectionLimit = 0.01, sd = FALSE)

Arguments

data	"deltaArray" attribute within the pwrEWAS object create by pwrEWAS
detectionLimit	Detection limit specified in pwrEWAS.
sd	FALSE if targetDelta was specified in pwrEWAS, and TRUE if deltaSD was specified in pwrEWAS.

Value

pwrEWAS_deltaDensity return a figure displaying densities of simulated differences in mean methylation different effect sizes

Examples

outDelta <- pwrEWAS(minTotSampleSize = 10,
    maxTotSampleSize = 20,
    SampleSizeSteps = 10,
    NcntPer = 0.5,
    targetDelta = c(0.2, 0.5),
    J = 1000,
    targetDmCpGs = 10,
    tissueType = "Adult (PBMC)",
    detectionLimit = 0.01,
    DMmethod = "limma",
    FDRcritVal = 0.05,
    core = 2,
    sims = 30)
pwrEWAS_deltaDensity(data = outDelta$deltaArray, detectionLimit = 0.01, sd = FALSE)
outSD <- pwrEWAS(minTotSampleSize = 10,
    maxTotSampleSize = 20,
    SampleSizeSteps = 10,
    NcntPer = 0.5,
    deltaSD = c(0.02, 0.03),
    J = 1000,
    targetDmCpGs = 10,
    tissueType = "Adult (PBMC)",
    detectionLimit = 0.01,
    DMmethod = "limma",
    FDRcritVal = 0.05,
    core = 2,
    sims = 30)
pwrEWAS_deltaDensity(data = outSD$deltaArray, detectionLimit = 0.01, sd = TRUE)

stefangraw/pwrEWAS documentation built on Oct. 27, 2019, 4:55 p.m.