tni.regulon.summary {RTN} | R Documentation

## Summary of regulon characteristics

### Description

This function takes a TNI object and optionally a list of regulatory elements and returns a summary of the network (if no regulatory elements are given) or of the chosen regulon or regulons.

### Usage

    tni.regulon.summary(object, regulatoryElements = NULL, verbose = TRUE)

### Arguments

`object` | a preprocessed object of class 'TNI' `TNI-class`.
`regulatoryElements` | a vector of valid regulatory elements (e.g. transcription factors).
`verbose` | a single logical value specifying to display detailed messages (when verbose=TRUE) or not (when verbose=FALSE).

### Value

It returns a print-out of the network summary (if verbose is TRUE) and invisibly returns a data.frame of network characteristics such as regulon size and regulon balance.

### Author(s)

Clarice Groeneveld

### See Also

`TNI-class`

### Examples

    data(dt4rtn)

    # select 5 regulatoryElements for a quick demonstration!
    tfs4test <- dt4rtn$tfs[c("PTTG1","E2F2","FOXM1","E2F3","RUNX2")]

    ## Not run:

    rtni <- tni.constructor(expData=dt4rtn$gexp, regulatoryElements=tfs4test,
            rowAnnotation=dt4rtn$gexpIDs)
    rtni<-tni.permutation(rtni)
    rtni<-tni.bootstrap(rtni)
    rtni<-tni.dpi.filter(rtni)

    # Summary of the network
    tni.regulon.summary(rtni)

    # Summary of a regulon
    tni.regulon.summary(rtni, regulatoryElements = "PTTG1")

    ## End(Not run)

[Package RTN version 2.6.3 Index]