BootRefFreeEwasModel: Bootstrap for Reference-Free EWAS Model

In RefFreeEWAS: EWAS using Reference-Free DNA Methylation Mixture Deconvolution

Description

Bootstrap procedure for reference-free method for conducting EWAS while deconvoluting DNA methylation arising as mixtures of cell types.

Usage

BootRefFreeEwasModel(mod, nboot)

Arguments

mod	model object of class RefFreeEwasModel (generated with smallOutput=FALSE).
nboot	Number of bootstrap samples to generate

Details

Generates the bootstrap samples for the reference-free method for conducting EWAS while deconvoluting DNA methylation arising as mixtures of cell types.

Value

An array object of class “BootRefFreeEwasModel”. Bootstraps are generated for both Beta and Bstar.

Author(s)

E. Andres Houseman

References

Houseman EA, Molitor J, and Marsit CJ (2014), Reference-Free Cell Mixture Adjustments in Analysis of DNA Methylation Data. Bioinformatics, doi: 10.1093/bioinformatics/btu029.

See Also

RefFreeEwasModel

Examples

data(RefFreeEWAS)

## Not run: 
  tmpDesign <- cbind(1, rfEwasExampleCovariate)
  tmpBstar <- (rfEwasExampleBetaValues 

  EstDimRMT(rfEwasExampleBetaValues-tmpBstar 

## End(Not run)

test <- RefFreeEwasModel(
  rfEwasExampleBetaValues,
  cbind(1,rfEwasExampleCovariate),
  4)

testBoot <- BootRefFreeEwasModel(test,10)
summary(testBoot)

RefFreeEWAS documentation built on May 2, 2019, 5:52 a.m.