plot,MotifEnrichmentReport,missing-method {PWMEnrich} | R Documentation

## Plot the motif enrichment report

### Description

Plots a graphical version of the motif enrichment report. Note that all values are plotted, if you want to plot only a subset of a report, first select this subset (see examples).

### Usage

    ## S4 method for signature 'MotifEnrichmentReport,missing'
    plot(
      x,
      y,
      fontsize = 14,
      id.fontsize = fontsize,
      header.fontsize = fontsize,
      widths = NULL,
      ...
    )

### Arguments

`x` | a MotifEnrichmentReport object
`y` | unused
`fontsize` | font size to use in the plot
`id.fontsize` | font size to use for the motif IDs
`header.fontsize` | font size of the header
`widths` | the relative widths of columns
`...` | unused if(requireNamespace("PWMEnrich.Dmelanogaster.background")) ### # load the pre-compiled lognormal background data(PWMLogn.dm3.MotifDb.Dmel, package = "PWMEnrich.Dmelanogaster.background") # scan two sequences for motif enrichment sequences = list(DNAString("GAAGTATCAAGTGACCAGTAAGTCCCAGATGA"), DNAString("AGGTAGATAGAACAGTAGGCAATGAAGCCGATG")) res = motifEnrichment(sequences, PWMLogn.dm3.MotifDb.Dmel) # produce a report for all sequences taken together r = groupReport(res) # plot the top 10 most enriched motifs plot(r[1:10])

[Package PWMEnrich version 4.28.1 Index]