as.data.frame {MotIV} | R Documentation

## Coerce to a Data Frame

### Description

This function coerces a MotIV object into a data frame.

### Usage

    ## S4 method for signature 'motiv'
    as.data.frame(x)

### Arguments

`x` | An object of class `motiv`.

### Details

'as.data.frame' returns a data frame.

This object regroups all the TF identified by `MotIV` with the corresponding evalue and alignments.

### Value

A `data.frame` object.

### Author(s)

Eloi Mercier <emercier@chibi.ubc.ca>

### See Also

`data.frame` , `viewAlignments`

### Examples

    #####Database and Scores#####
    path <- system.file(package="MotIV")
    jaspar <- readPWMfile(paste(path,"/extdata/jaspar2010.txt",sep=""))
    jaspar.scores <- readDBScores(paste(path,"/extdata/jaspar2010_PCC_SWU.scores",sep=""))

    #####Input#####
    data(FOXA1_rGADEM)
    motifs <- getPWM(gadem)
    motifs.trimed <- lapply(motifs,trimPWMedge, threshold=1)

    #####Analysis#####
    foxa1.analysis.jaspar <- motifMatch(inputPWM=motifs,align="SWU",cc="PCC",database=jaspar,DBscores=jaspar.scores,top=5)
    foxa1.analysis.jaspar.df = as.data.frame(foxa1.analysis.jaspar)
    head(foxa1.analysis.jaspar.df)

[Package MotIV version 1.40.0 Index]