R Labs for Vegetation Ecologists   

  • Introduction
  • Familiarization with Data
    • Lab 1 Loading Vegetation Data and Simple Graphical Data Summaries
    • Lab 2 Loading Site/Environment Data and Simple Graphical Summaries
    • Lab 3 Vegetation Tables and Summaries
  • Modeling Species Distributions
    • Lab 4 Modeling Species Distributions with Generalized Linear Models
    • Lab 5 Modeling Species Distributions with Generalized Additive Models
    • Lab 6 Modeling Species Distributions with Classification Trees
  • Ordination
    • Lab 7 Principal Components Analysis
    • Lab 8 Principal Coordinates Analysis
    • Lab 9 Nonmetric Multi-Dimensional Scaling
    • Lab 10 Correspondence Analysis and Detrended Corresponence Analysis
    • Lab 11 Fuzzy Set Ordination
    • Lab 12 Canonical Correspondence Analysis
  • Cluster Analysis
    • Lab 13 Cluster Analysis
    • Lab 14 Discriminant Analysis with Tree Classifiers
لینک
چهارشنبه ٧ فروردین ۱۳۸٧ - BIO~STATISTICS

   Gibbs Sampling and Screening Tests   

Annotated list of items from "Elementary Uses of the Gibbs Sampler: Applications to Medical Screening Tests" by Eric A. Suess, Christopher M. Fraser, and Bruce E. Trumbo,  STATS, No. 27, Winter 2000, pages 3-10. 
(Quick links if you know the item designations:  Appendixes: A, B, C, D.  Notes: 1, 2, 3.  S-Plus Script—Sec. 4, 7, 8.  Figures: 1, 2, 3, 4, 5.  Tables: 1, 2, 3, 4, 5.)

Auxillary Items for STATS Article

Related Classroom Resources

  • Session 1: Screening Tests
  • Session 2: Two-State Markov Chains
  • Session 3: A Simple Example of the Gibbs Sampler
  • Session 4: A Brief Introduction to Bayesian Estimation
  • Session 5: Gibbs Sampling in Practice (in preparation)
لینک
چهارشنبه ٧ فروردین ۱۳۸٧ - BIO~STATISTICS

   S-PLUS (and R) Manual to Accompany Agresti’s   

S-PLUS (and R) Manual to Accompany Agresti’s Categorical Data Analysis (2002), 2007
Laura A. Thompson, PhD


PRINTING NOTE: From some printers, the mathematical symbols do not appear. I have identified the problem, and I will have this fixed soon (I will also fix the fact that some symbols don't even show up on screen.) In the meantime, if you save the pdf file to your hard disk, and then print from a postscript viewer such as the free Ghostview, the symbols may appear (at least they do for me).


https://home.comcast.net/~lthompson221/Splusdiscrete2.pdf
 
لینک
شنبه ۸ اردیبهشت ۱۳۸٦ - BIO~STATISTICS

   Analyzing Linguistic Data   

Analyzing Linguistic Data. A Practical Introduction to Statistics, 2007

Harald Baayen, Max-Planck-Institut für Psycholinguistik, The Netherlands


This textbook provides a straightforward introduction to the statistical analysis of language. Designed for linguists with a non-mathematical background, it clearly introduces the basic principles and methods of statistical analysis, using 'R', the leading computational statistics programme.

http://www.mpi.nl/world/persons/private/baayen/publications/baayenCUPstats.pdf

لینک
شنبه ۸ اردیبهشت ۱۳۸٦ - BIO~STATISTICS

   INTRODUCTION TO STATISTICAL COMPUTING IN R   

 

John Fox

(Department of Sociology, McMaster University)

York University Statistical Consulting Service

Toronto, October 2006

Topic

Optional Reading (in the R and S-PLUS Companion)

Materials
1. Getting started with RCh. 1script, exercises, notes, Tom Short's R reference card, Duncan.txt
2. Statistical models in RCh. 4, 5, & appendicesscript, exercises, Prestige.txt, Powers.txt, Long.txt
3. Data in R; using R packagesCh. 2 & 3script, exercises, nations.por, Duncan.xls
4. Programming in RCh. 8script, exercises, bugged functions, notes, solutions
5. R GraphicsCh. 7script, exercises, symbols-colours.R, UnitedNations.txt, notes, solutions
6. Odds and Ends
script

http://socserv.socsci.mcmaster.ca/jfox/Courses/R-course/index.html

 
لینک
پنجشنبه ۱۱ آبان ۱۳۸٥ - BIO~STATISTICS

   Ecological Models and Data in R   

This is the web site for a work in progress, scheduled for delivery to Princeton University Press in September 2006, on Ecological Models and Data in R. 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.

Last update: 13 Sept 2006 (chapters 3 and 4)

Formats: PDF, Rnw (Sweave -- original "source code"), R (R code only)

  • 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

Exercises:

Miscellaneous R code

Data and scripts:

http://www.zoo.ufl.edu/bolker/emdbook/
لینک
یکشنبه ۳٠ مهر ۱۳۸٥ - BIO~STATISTICS

   Generalized Linear Models, WWS509, Princeton University   

List of Chapters

As noted below, the notes are offered in two formats: HTML and PDF. Use the table below to jump directly to each of the Chapters in the notes. If you are browsing, check out the more detailed table of contents available for the HTML version.

 

ChapterBrowsePrint
2. Linear Models for Continuous Datahtmlpdf (332 KB)
3. Logit Models for Binary Datahtmlpdf (261 KB)
4. Poisson Models for Count Data*htmlpdf (123 KB)
5. Log-Linear Models for Contingency Tableshtmlpdf (146KB)
6. Multinomial Response Modelshtmlpdf (166 KB
7. Survival Modelshtmlpdf (214 KB)
A. Review of Likelihood Theoryhtmlpdf (114 KB)
B. Generalized Linear Model Theoryhtmlpdf (126 KB)

No, there is no Chapter 1 ... yet. One day I will write an introduction to the course and that will be Chapter 1.

* See also the addendum on Modelling Over-Dispersed Count Data, which describes models with extra-Poisson variation and negative binomial regression.

http://data.princeton.edu/wws509/notes/default.htm
لینک
پنجشنبه ۳٠ شهریور ۱۳۸٥ - BIO~STATISTICS

   Computational Statistics   

Course materials

Lecture notes
Projects
Rhistory files
لینک
سه‌شنبه ٢٩ آذر ۱۳۸٤ - BIO~STATISTICS