Visualizing the footprint profile

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

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)