Ecological Models and Data in R
This is the web site for a book being published by Princeton
University Press in September 2008,
on Ecological Models and Data in R (ISBN
0691125228). It is
available for pre-order from Princeton
University Press and Amazon.com.
The book is based on a class I have taught several times
at the University of Florida, covering the nitty-gritty
of constructing and fitting simple (statistical) ecological
models to real data sets. If you want to see the existing notes for the
course, start
here.
I have set up a wiki for the book at emdbolker.wikidot.com/: this has errata (not too many yet) and added notes for each chapter.
Exercises:
Data and scripts:
Most of the data for the book are available in the emdbook package on
CRAN. If you would like the goby data, please contact me.
Miscellaneous R code
(put tangled R code here)
Most of the R code for doing things in the book is now in the two
packages bbmle
(also available in a development
version) and
emdbook,
both available from R archive (CRAN) or via install.packages
from inside R.
Old PDFs
Individual chapters
Last update: 27 December 2006
Formats: PDF, Rnw (Sweave -- original "source code"),
R (R code only)
- proposal
- 1: Introduction pdf
Rnw
R
- 2: getting data into R (troubleshooting, exploratory data
analysis & graphics)
pdf Rnw
R
- 3: basics of mathematical models for ecology
pdf Rnw
R
- 4: basics of statistical models for ecology
pdf Rnw
R
- 5: stochastic simulation, power, randomization tests
pdf Rnw
R
- 6: likelihood and all that
pdf Rnw
R
- 7: the gory details of model fitting
pdf Rnw
R
- 8: worked likelihood estimation examples
pdf Rnw
R
- 9: classical statistics revisited
pdf Rnw
R
- 10: modeling variance
pdf Rnw
R
- 11: dynamic models
pdf Rnw
R
- Appendix: notes on algebra etc. pdf
Rnw
R
last modified 2 July 2008