read.GS.report: read.GS.report

In RnBeads: RnBeads

Description

Reads in a Genome Studio report, exported as a single file.

Usage

read.GS.report(
  gsReportFile,
  pd = NULL,
  sep = rnb.getOption("import.table.separator"),
  keep.methylumi = FALSE,
  verbose = TRUE
)

Arguments

gsReportFile	location of the GS report file
pd	alternative sample annotation, if the gsReporFile is missing the sample section as data.frame of character singleton with the file name
sep	character used as field separator in the sample sheet file and in the GS report file (should be identical). Default value is taken by the call to rnb.getOption("import.table.separator")
keep.methylumi	a flag indicating whether the a MethyLumiSet object should be returned instead of a RnBeadRawSet.
verbose	Flag indicating ifthe messages to the logger should be sent. Note that the logger must be initialized prior to calling this function. Logging is useful for keeping a record of the downloaded and processed samples. Also, informative messages are stored in case of an error.

Value

MethylumiSet object with the data from the report

RnBeads documentation built on March 3, 2021, 2 a.m.