overplot
graphs a set of variables defined on the same xrange
but which have varying yranges on the same plotting area. For each
set of yvalues it uses a different color and linetype and and draws
a correspondingly colored and linetyped axis. panel.overplot
is used by overplot
to draw the individual graphs.
1 2 3 
formula 
Formula describing the x and y variables. It should be of the form x ~ yz. The conditioning variable (z) should be a factor. 
same.scale 
Logical value indicating whether the plot region
should have the same range for all plots. Defaults to 
xlab, ylab, xlim, ylim, main 
Standard plotting parameters. See

min.y, max.y 
Scalar or vector values used to specify the y plotting limits for individual plots. If a single scalar value is provided, it will be used for all plots. These parameters can be used specify one end of the individual plot ranges, while allowing the other end to vary with the data. EG, to force 0 to always be within the plot region. 
log 
character string ”, 'x', 'y', or 'xy', indicating which axes should be plotted on a log scale. Defaults to ” (neither). 
panel 
a plotting function to be called to draw the individual
plots. Defaults to 
plot 
Logical value indicating whether to draw the plot. 
groups 
(optional) character vector giving the names of levels of the conditioning variable to plot. Defaults to all levels of the conditioning variable. 
f 
Smoothing parameter for 
data, subset, ... 
parameters passed to 
This function essentially performs
tmp < split(data, z)
for(i in levels(z))
plot( x ~ y, data=tmp[[z]] )
except that all of the plots are shown on the same plotting region and varying scales for each value of z are handled nicely.
A copy of the data split by the conditioning variable.
Gregory R. Warnes greg@warnes.net
interaction.plot
,
coplot
for alternative visualizations of 3way data.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26  # Example teratogenicity rtPCR data
data(rtPCR)
# same scale
overplot( RQ ~ Conc..ug.ml.  Test.Substance,
data=rtPCR,
subset=Detector=="ProbeType 1" & Conc..ug.ml. > 0,
same.scale=TRUE,
log="xy",
f=3/4,
main="Detector=ProbeType 1",
xlab="Concentration (ug/ml)",
ylab="Relative Gene Quantification"
)
# different scales, but force lower limit to 0.01
overplot( RQ ~ Conc..ug.ml.  Test.Substance,
data=rtPCR,
subset=Detector=="ProbeType 8" & Conc..ug.ml. > 0,
log="xy",
f=3/4,
main="Detector=ProbeType 8",
xlab="Concentration (ug/ml)",
ylab="Relative Gene Quantification",
min.y=0.01
)

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.
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