langmuirMethArrays: Langmuir parameters for DNA Methylation Arrays

In stephaniehicks/quantroSim: Supporting Data Simulation R-package for quantro

Description

These are the parameters used to simulate the DNA Methylation arrays. The parameters are used in the Langmuir adsorption model.

Usage

langmuirMethArrays(nProbes, nSamps, nGroups, mua = NULL, siga = NULL,
  mub = NULL, sigb = NULL, muOpt = NULL, sigOpt = NULL, muBG = NULL,
  sigBG = NULL, muERR = NULL, sigERR = NULL)

Arguments

nProbes	number of probes
nSamps	number of samples in each group
nGroups	number of groups
mua	hyperparameter: mean of log normal distribution for a
siga	hyperparameter: variance of log normal distribution for a
mub	hyperparameter: mean of log normal distribution for b
sigb	hyperparameter: variance of log normal distribution for b
muOpt	hyperparameter: mean of log normal distribution for optical noise
sigOpt	hyperparameter: variance of log normal distribution for optical noise
muBG	hyperparameter: mean of log normal distribution for d
sigBG	hyperparameter: variance of log normal distribution for d
muERR	hyperparameter: mean of log normal distribution for measurement error
sigERR	hyperparameter: variance of log normal distribution for measurement error

Value

A list with elements

gID	Group number ID
a	Simulated a values for the Langmuir Adsorption model
b	Simulated b values for the Langmuir Adsorption model
d	Simulated d values for the Langmuir Adsorption model
opt	Simulated optical noise
errMeth	Simulated measurement error for methylation values
errUnmeth	Simulated measurement error for unmethylation values

Author(s)

Stephanie Hicks

Examples

langmuirMethArrays(nProbes = 10000, nSamps = 4, nGroups = 2)

stephaniehicks/quantroSim documentation built on May 30, 2019, 3:17 p.m.