# [R] package plotrix: how to account for two two z categories

Luigi Marongiu m@rong|u@|u|g| @end|ng |rom gm@||@com
Wed Sep 23 14:47:34 CEST 2020

```Hello,
I have an experiment measuring optical density (OD) when comparing
three parameters:
a) concentration of the target
b) concentration of the probe
c) concentration of the reporter antibody.
Using plotrix I can nicely draw the first two into clusters, but I
can't get separation for the third parameter. is there a way in
plotrix to custer data according to two, let's say, z parameters (I
call the second high-level parameter as w)? For instance, two
clusters, each separated into two subclusters. Or is this more a job
for lattice?
Thank you.

```
x = rep(c(rep("1000 pmol", 4), rep("0 pmol", 4)),2)
z =  rep(c(rep("Treated", 2), rep("Untreated", 2), rep("Treated", 2),
rep("Untreated", 2)))
w = c(rep("1:1000", 8), rep("1:2000", 8))
y = c(1.18, 1.22, 1.52, 2.37, 0.97, 1.08, 1.17, 1.58, 1.16, 1.16, 2.27, 2.24,
1.26, 1.28, 1.39, 1.77)
Q = data.frame(x, z, w, y, stringsAsFactors = FALSE)
names(Q) = c("[Target]", "Enzyme", "[Antibody]", "OD")
names(Q) = c("x", "z", "w", "y") # for ease, I'll use single letters
library(plotrix)
brkdn.plot(y~x+z, data=Q,
pch = c(1, 16), cex = 1.5, type="p",
main="Single Measurement",
xlab=expression(bold("S1 nuclease")),
ylab=expression(bold("Optical density")))
brkdn.plot(y~x+z+w, data=Q,
pch = c(1, 16), cex = 1.5, type="p",
main="Double Measurement",
xlab=expression(bold("S1 nuclease")),
ylab=expression(bold("Optical density")))
```

```