seqLogoGrid

logical If TRUE, the height of each
  column is proportional to its information content.
  Otherwise, all columns have the same height.

ic.scale

logical If TRUE, an X-axis will be plotted.

xaxis

logical If TRUE, a Y-axis will be plotted.

yaxis

numeric Font size to be used for the
  X-axis.

xfontsize

numeric Font size to be used for the
  Y-axis.

yfontsize

the scaling parameter for the X-axis
  margin. Useful when plotting more than one logo on a
  page

xmargin.scale

the scaling parameter for the Y-axis
  margin. Useful when plotting more than one logo on a
  page

ymargin.scale

title

titlefontsize


  This function comes from the seqLogo package. It has been
  modified to remove some unneccessary code as suggested by
  W Huber
  (https://stat.ethz.ch/pipermail/bioconductor/2010-September/035267.html).


A toolkit of high-level functions for DNA motif scanning
and enrichment analysis built upon Biostrings. The main
functionality is PWM enrichment analysis of already known PWMs
(e.g. from databases such as MotifDb), but the package also
implements high-level functions for PWM scanning and
visualisation. The package does not perform "de novo" motif
discovery, but is instead focused on using motifs that are
either experimentally derived or computationally constructed by
other tools.

Robert Stojnic

PWMEnrich

PWM enrichment analysis

seqLogoGrid function

This function comes from the seqLogo package. It has been
  modified to remove some unneccessary code as suggested by
  W Huber
  (https://stat.ethz.ch/pipermail/bioconductor/2010-September/035267.html).

seqLogoGrid: Draw a motif logo on an existing viewport

Description

Usage

Arguments

Details