setEnrCutoff {MIGSA} | R Documentation

## Set enrichment cutoff for a MIGSAres object

### Description

`setEnrCutoff` sets the enrichment cutoff value for a MIGSAres object in order to get detailed enrichment results.

### Usage

    setEnrCutoff(object, newEnrCutoff)

    ## S4 method for signature 'MIGSAres,numeric'
    setEnrCutoff(object, newEnrCutoff)

### Arguments

`object` | a MIGSAres object.
`newEnrCutoff` | numeric value in range [0,1] or NA to set the new enrichment cutoff. If NA then enrichment cutoff is unset for object.

### Value

A MIGSAres object with the updated slots.

### Examples

    data(migsaRes)
    ## After executing MIGSA, the MIGSAres object does not have an enrichment
    ## cutoff set, so it will be shown as follows:
    head(migsaRes)
    ## Now lets set an enrichment cutoff, and then show again the object.
    migsaResWCoff <- setEnrCutoff(migsaRes, 0.01)
    head(migsaResWCoff)
    ## So now we can do stuff like check how many gene sets are enriched in both
    ## experiments, in each one, etc. Moreover now we can do different MIGSAres
    ## plots available in MIGSA package.
    table(migsaResWCoff[, c("igsaInput1", "igsaInput2")])
    ## And with different cutoffs.
    migsaResWCoff <- setEnrCutoff(migsaRes, 0.1)
    table(migsaResWCoff[, c("igsaInput1", "igsaInput2")])

[Package MIGSA version 1.11.7 Index]