getSampleCorrelation {chromVAR} | R Documentation

## getSampleCorrelation

### Description

Get correlation between samples based on bias corrected deviations

### Usage

    getSampleCorrelation(object, threshold = 1.5)

### Arguments

`object` | deviations result
`threshold` | threshold for variability

### Details

This function will compute the correlation between samples based on the normalized deviations. It will first remove correlated motifs/peak sets. Then the pearson correlation coefficient will be computed and returned.

### Value

correlation matrix between samples

### Author(s)

Alicia Schep

### See Also

`getSampleDistance`

### Examples

    # Load very small example results from computeDeviations
    data(mini_dev, package = "chromVAR")
    sample_cor <- getSampleCorrelation(mini_dev, threshold = 0.8)
    # setting very low variabilitiy threshold because this is mini data set
    # threshold should generally be above 1
    # Use plotVariability to get a sense of an appropriate threshold
    # As this is mini data set, results probably not meaningful!

[Package chromVAR version 1.12.0 Index]