[R] regression with nestedness

[Jeffrey Stratford]

Dear R-users,

I set up an experiment where I put up bluebird boxes across an
urbanization gradient.  I monitored these boxes and at some point I
pulled a feather from a chick and a friend used spectral properties
(rtot, a continuous var) to index chick health.  There is an effect of
sex that I would like to include but how would I set up a regression and
look at the effect of urbanization (purban, a continuous var)) on
feather properties of chicks within boxes.  

So the model should look something like rtot = sex + purban +
(chick)clutch

Also, when I plot purban against rtot using the plot function I get
boxplots but I would like to ignore the clutch and just plot each point.
 I've tried type = "p" but this has no effect.  

Thanks,

Jeff

 

****************************************
Jeffrey A. Stratford, Ph.D.
Postdoctoral Associate
331 Funchess Hall
Department of Biological Sciences
Auburn University
Auburn, AL 36849
334-329-9198
FAX 334-844-9234
http://www.auburn.edu/~stratja