Hi,
Bioconductor.org is the home of the geneplotter package. You get a
quicker response if you ask there.
/Henrik
On Mon, Sep 22, 2008 at 7:06 AM, Jason Pare [EMAIL PROTECTED] wrote:
Hello,
I am attempting to use smoothScatter to plot a heatmap of locations of
events in an x-y axis. When I plot the heatmap without passing xlim and ylim
parameters, it fills the plot area but the perspective is a bit skewed. I
would like to standardize these plots to a uniform window size that does not
depend on the range of values in the dataframe. However, when I resize the
plot using xlim or ylim, there is a light blue background that surrounds the
immediate area of the data (correspnding to the range of the points listed
in the dataframe), surrounded by extra white space for the new xlim and ylim
values I have added. Some of the rings around the datapoints are also cut
off at the margins.
I would like to stop the plot from being cut off, and want this light blue
range to extend throughout the entire area of the resized plot. I have
attempted to add NAs, but it has no effect on expanding this light blue plot
area. Code is below.
xyz is a dataframe containing two columns with corresponding x and y
values
library(geneplotter)
library(RColorBrewer)
layout(matrix(1:1, ncol=2, byrow=TRUE))
smoothScatter(xyz, nrpoints=0, xlim=c(-3,3),
ylim=c(0,5),colramp=colorRampPalette(c(#f8f8ff, white,
#736AFF, cyan, yellow, #F87431, #FF7F00, red,
#7E2217)))
###END
Thanks very much for any help,
Jason
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