calc_stats {DMRforPairs} | R Documentation

## CALCULATE DESCRIPTIVE AND TEST STATISTICS

### Description

Calculate the (difference in) median beta and M values for the rows specified in probe_rows (descriptive statistics). probe_rows must specify a continuous range of adjacent probes. If a regions shows an high difference (>dM_min) between any pair of samples, the differences are formally tested (Mann Whitney U if n=2, Kruskal Wallis n>2). If n>2 and the omnibus test is significant , pairwise testing is performed to determine which differ significantly.

### Usage

    calc_stats(probe_rows,probes,m,b,n,dMth,do.format=FALSE)

### Arguments

`probe_rows` | Vector of row numbers in regions$valid.m, regions$valid.beta or regions$perprobe identifying adjacent probes. See output `regionfinder`
`probes` | see output of `regionfinder` (regions$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` | see `testregion`

### Details

The p-values reported by this function are not yet adjusted for multiple testing. This function is rarely called by the user directly.

### Value

Data frame or vector with statistics and test results concerning the probes specified in probe_rows (please see description).

### Author(s)

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

### See Also

`DMRforPairs`, `regionfinder`, `testregion`.

### Examples

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

[Package DMRforPairs version 1.20.0 Index]