Usage
MOJOV.simulation(cohortSize = 500, nReps = 2, theta = 10, sites = NULL,
affectNum = NULL, MAF = 0.01, totalMAF = 0.05, lambda = 1, sd = NULL,
type = c("alpha","belta"), sampleNum = 100, outFile = NULL, plot = FALSE,
codeMethod = c("Proportion", "Indicator", "ChuanhuaXin"),
weightMethod = c("ChuanhuaXin"), testMethod = c("FTest", "WaldTest",
"LRT", "Sandwich", "all"), save = NULL)
Arguments
cohortSize
Specify the size for analysis cohort.
nReps
Specify the number of independent samples to generate.
theta
Specify the mutation parameter,see details.
sites
Specify the number of sites, it is optional.
affectNum
Specify the number or ratio for affect sites.If it is less than 1, it will be the ratio of affect rare variants sites to all rare variants.
MAF
Specify the minor allele frequency, and the default value is 0.01.
totalMAF
Specify the total minor allele frequency for affect variants. And the default value is 0.05.
lambda
Specify the lambda for phenotype standard error.See details.
sd
Specify the standard error.See details.
type
It can be "alpha" and "belta". The default value is "alpha".
sampleNum
Specify the number of sample. The default value is 100.
outFile
You can specify a file name to save your data from ms.
plot
You can set it as TRUE, it will plot the result using lattice package.
save
You can specify a file name to save your simulation result.