plotFootprints {ATACseqQC} | R Documentation

## Plots a footprint estimated by Centipede

### Description

Visualizing the footprint profile

### Usage

    plotFootprints(
      Profile,
      Mlen = 0,
      xlab = "Dist. to motif (bp)",
      ylab = "Cut-site probability",
      legLabels = c("For. strand", "Rev. strand"),
      legTitle,
      xlim,
      ylim,
      newpage = TRUE,
      motif,
      segmentation
    )

### Arguments

`Profile` | A vector with the profile estimated by CENTIPEDE
`Mlen` | Length of the motif for drawing vertical lines delimiting it
`xlab` | Label of the x axis
`ylab` | Label for the y axis
`legLabels` | Labels for legend.
`legTitle` | Title for one of the plot corners
`xlim` | xlim
`ylim` | ylim
`newpage` | Plot the figure in a new page?
`motif` | a pfm object.
`segmentation` | the segmentation position and abundance

### Value

Null.

### Author(s)

Jianhong Ou

### Examples

    library(MotifDb)
    CTCF <- query(MotifDb, c("CTCF"))
    CTCF <- as.list(CTCF)
    motif <- new("pfm", mat=CTCF[[1]], name="CTCF")
    ATACseqQC:::plotFootprints(Profile=sample.int(500),
                            Mlen=ncol(CTCF[[1]]), motif=motif)

[Package ATACseqQC version 1.10.4 Index]