rnb.execute.quality {RnBeads} | R Documentation

## rnb.execute.quality

### Description

Performs quality control calculations on the loaded DNA methylation data set.

### Usage

    rnb.execute.quality(object, type = "sites",
      qc.coverage.plots = rnb.getOption("qc.coverage.plots"), verbose = TRUE)

### Arguments

`object` | Methylation dataset as an object of class `RnBeadSet`, `RnBeadRawSet` or `RnBiseqSet`.
`type` | `character` vector of length `1` giving the type of genomic regions for which the quality control information is summarized.
`qc.coverage.plots` | Flag indicating if sequencing coverage information is summarized and returned. This parameter is considered only when `object` is of type `RnBiseqSet`.
`verbose` | Flag specifying whether diagnostic output should be written to the console or to the RnBeads logger in case the latter is initialized.

### Details

Currently, summarizing coverage for `RnBiseqSet` object is the only available function.

### Value

`RnBeadSet` object with imputed quality control information

### Author(s)

Pavlo Lutsik

[Package RnBeads version 1.10.8 Index]