read.methdf5.sheet: process as sample sheet directly into an RGChannelSet backed...

In trichelab/h5testR: Tests for HDF5-backed DNAme, RNAseq, and MultiAssayExperiment objects

Description

For processing lists of IDATs, see read.methdf5

Usage

read.methdf5.sheet(sheet, filepath = "my_h5_se", ...)

Arguments

sheet	a sample sheet, as from read.metharray.sheet
filepath	a directory in which to put the HDF5 data ("my_h5_se")
...	other arguments, passed to minfi:::read.metharray2

Value

an HDF5-backed RGChannelSet

See Also

read.methdf5

Examples

# cheezy 450k example
if (require("minfiData")) {
  baseDir <- system.file("extdata", package = "minfiData")
  sheet <- read.metharray.sheet(baseDir)
  inCore <- read.metharray(basenames=sheet$Basename)
  outOfCore <- read.methdf5.sheet(sheet)
  stopifnot(identical(dim(inCore), dim(outOfCore)))
  verifyRGsets(ram=inCore, hdf5=outOfCore)
}

trichelab/h5testR documentation built on July 12, 2020, 5:18 p.m.