Example R programs

• Week 1:
  1-way ANOVA oneway.r
  2-way ANOVA twoway.r

• Week 4:
  Analysis of an Aitken model aitken.r.

• Week 5:
  Plotting 2D likelihood and profile likelihood for the AR(1) model lnLar1.r
  Calculating profile likelihood for rho in an AR(1) model profile.r

• Week 6:
  Fitting a Bernoulli logistic regression challenger.r
  Confidence intervals for logistic regression coefficients (new code) confint.r
  Fitting a Binomial logistic or Poisson regression trout.r

• Week 6/7
  Calculations with proportions prop.r
• Week 8: fitting a linear mixed effect model sdlwtLME.r

• Week 10: fitting a split plot model splitPlot.r

• Week 11: Inference for a linear mixed effect model SeedlingInference.r
                  Information from Ben Bolker about what distributions are used by mcmcsamp mcmcsamp.txt
                  An edited discussion on inference in lmer is here
• Week 11: BLUP's for random effects blup.r
• Week 11: Fitting a random coefficient regression model chute.r
• Week 11: Fitting repeated measures models asparagus.r

• Week 12: Fitting a GLMM or GEE deer.r
• Week 12: Fitting a GLMM or GEE with code for all the plots deer2.r

• Week 13: Fitting a nonlinear model nls.r
• Week 13: Fitting a nonlinear mixed model theoph.r
• Week 13: Penalized regression splines diabetes.r