testregion {DMRforPairs} | R Documentation

## METHYLATION DIFFERENECE & TESTING FOR 1 REGIONID

### Description

Serves as a wrapper for `calc_stats`. `calc_stats` is a generic function using row numbers of adjacent probes which are to be queried for their difference in methylation levels between samples. testregion() identifies the row numbers of probes included in a specific regionID x and then calls `calc_stats`. It returns the difference in methylation level for region x and (if appropriate) the results of formal tests that evaluate this difference.

### Usage

    testregion(x,probes,m,b,n,dMth,do.format=FALSE)

### Arguments

`x` | region ID, see output `regionfinder`.
`probes` | see output of `regionfinder` (regions$perprobe).
`m` | see output of `regionfinder` (regions$valid.m).
`b` | see output of `regionfinder` (regions$valid.beta).
`n` | total number of samples.
`dMth` | see min_dM parameter of `DMRforPairs`
`do.format` | If TRUE, the function returns a formatted data frame with statistics regarding the region. If FALSE, it returns a basic vector. This is more computationally efficient if testregion is used in a loop (like in `DMRforPairs`).

### Details

This function is rarely called by the user directly.

### Value

Data frame or vector (depending on the setting of do.format) with statistics and test results concerning region x. For specification, please see `calc_stats`.

### Author(s)

Martin Rijlaarsdam, m.a.rijlaarsdam@gmail.com

### See Also

`calc_stats`

### Examples

    #testregion() is an integrated part of the DMRforPairs() wrapper and is
    #not usually called by the user directly. Please see this function for
    #an example.

[Package DMRforPairs version 1.30.0 Index]