findOutsideValues {BEclear} | R Documentation

## Find DNA methylation values out of the boundaries

### Description

A method which lists values below 0 or beyond 1 contained in the input matrix. These entries are stored in a data.frame together with the corresponding row and column position of the matrix. Note that this method is especially designed for DNA methylation data.

### Usage

    findOutsideValues(data)

### Arguments

`data` | any matrix filled with values that normally should be bounded between 0 and 1.

### Details

findOutsideValues

Note that this method is especially designed to run after the batch effect correction of DNA methylation data, e.g. with the `correctBatchEffect` method. It can happen, that the predicted values are lying slightly below the lower bound of 0 or beyond the upper bound of 1. This method finds these inaccurately predicted entries. Another method called `replaceOutsideValues` replaces these values either by 0 or 1, respectively.

### Value

A data frame containing the columns "level", "row", "col" and "value" defining if the value is below 0 or beyond 1 (level = 0 or level = 1), the row position and the column position in the input matrix and the value itself, respectively.

### See Also

`replaceOutsideValues`

`correctBatchEffect`

### Examples

    data(BEclearCorrected)
    # Find predicted values outside of the boundaries
    outsideEntries <- findOutsideValues(data = ex.corrected.data)

[Package BEclear version 2.8.0 Index]