hotspotFinder {iBMQ} | R Documentation

## hotspotFinder

### Description

One main advantage of our method is its increased sensitivity for finding trans-eQTL hotspots (corresponding to situations where a single SNP is linked to the expression of several genes across the genome).

### Usage

    hotspotFinder(peak, numgene)

### Arguments

`peak` | A data frame (3 columns) corresponding to the output of the eqtlFinder function or the data frame (9 columns) corresponding to the output of the eqtlClassifier function.
`numgene` | The minimum of gene to detect.

### Value

The output of this function is a list, where each element is a marker. For each marker there is a data frame with all the eQTLs linked to this marker.

### Examples

    data(PPA.liver)
    cutoff.liver <- calculateThreshold(PPA.liver, 0.2)
    eqtl.liver <- eqtlFinder(PPA.liver, cutoff.liver)
    hotspot.liver <- hotspotFinder(eqtl.liver,20)

[Package iBMQ version 1.30.0 Index]