readidat {ENmix} | R Documentation

## Parsing IDAT files from Illumina methylation arrays.

### Description

Read in IDAT files and create a rgDataSet with probe annotation

### Usage

    readidat(path = NULL,manifestfile=NULL,recursive = FALSE, verbose = FALSE)

### Arguments

`path` | Directory where idat files are located
`manifestfile` | The file name of array manifestfile, which can be downloaded from Illumina website. Bioconductor manifest package will be used if not provided
`recursive` | if TRUE, idat files in the subdirectories will also be read in
`verbose` | if TRUE, detailed running info will be printed on screen

### Value

An object of class `rgDataSet`

### Author(s)

Zongli Xu

### Examples

    ## Not run:
    require(minfidata)
    path <- file.path(find.package("minfiData"),"extdata")
    #based on rgDataset
    rgSet <- readidat(path = path,recursive = TRUE)

    ## End(Not run)

[Package ENmix version 1.23.5 Index]