seqLogoGrid: Draw a motif logo on an existing viewport

In PWMEnrich: PWM enrichment analysis

Description

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).

Usage

seqLogoGrid(
  pwm,
  ic.scale = TRUE,
  xaxis = TRUE,
  yaxis = TRUE,
  xfontsize = 10,
  yfontsize = 10,
  xmargin.scale = 1,
  ymargin.scale = 1,
  title = "",
  titlefontsize = 15
)

Arguments

pwm	numeric The 4xW position weight matrix.
ic.scale	logical If TRUE, the height of each column is proportional to its information content. Otherwise, all columns have the same height.
xaxis	logical If TRUE, an X-axis will be plotted.
yaxis	logical If TRUE, a Y-axis will be plotted.
xfontsize	numeric Font size to be used for the X-axis.
yfontsize	numeric Font size to be used for the Y-axis.
xmargin.scale	the scaling parameter for the X-axis margin. Useful when plotting more than one logo on a page
ymargin.scale	the scaling parameter for the Y-axis margin. Useful when plotting more than one logo on a page
title	to be shown on the top
titlefontsize	the fontsize of the title

Details

Use this function for more advanced plotting where the viewports are directly set up and maintained (see package grid).

PWMEnrich documentation built on Nov. 8, 2020, 7:45 p.m.