PubH 8452 Advanced Longitudinal Data Analysis (Spring 2009)

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Syllabus pdf

Lecture Notes

1. Introduction

2. Exploratory Data Analysis

3. General Linear Models

4. General Linear Models: Case Studies

5. Linear Mixed Models

6. Linear Mixed Models: Case Studies

7. Generalized Linear Models, Quasi-likelihood and Generalized Estimating Functions

8. Marginal Model for Categorical Data

9. Marginal Model for Categorical Data: Case Studies

10. Likelihood-Based Methods for Repeated Binary Data

11. Modeling Approaches: Marginal, Random Effects and Transition Models

12. Generalized Linear Mixed Models: Part I, Part II

13. Transition Models and Marginalized Models

14. Time-Dependent Covariates

15. Missing Data in Longitudinal Studies

16. Sample Size Considerations

Data Sets

data/cd4.dat	CD4 Count Data
data/tlc.txt	Treatment of Lead-Exposed Children Trial (TLC)
data/orthodontic.dat	Orthodontic Data
data/tracking.dat	The “tracking” Data
data/ICHS.dat	Indonesian Children Health Study (ICHS)
data/xerop.data	Indonesian Children Health Study (ICHS)
data/xover1.data	Two-Period Crossover Trial (xover1.txt)
data/xover3.data	Three-Period Crossover Trial (xover3.txt)
data/tera.dat	Teratology Data
data/seize.data	Epileptic Seizure Data
data/mscm.data	MSCM Data
data/panss.data	Schizophrenia Trial Data (panss.txt)

Homework Assignments

• Homework 1:
• Homework 2:
• Homework 3:
• Homework 4:

Paper Presentation

• Description
• Schedule

Project

• DATA
• README

Useful Links

Other LDA course

• Don Hedeker's Longitudinal Data Analysis course at UIC .
• Francesca Dominici's Longitudinal Data Analysis at Hopkins.
• Marie Davidian's Applied Longitudinal Data Analysis at NCSU.

R and S-PLUS

• The R and S-PLUS web sites.
• Some useful R functions:
• lm(stats)
• groupedData(nlme)
• reshape(stats)
• lme(nlme)
• Variogram(nlme)
• glm(stats)
• gee (gee)
• geese (geepack)
• alr (alr)
• gnlr (gnlm)
• Linear Mixed Models (appendix to John Fox's An R and S-PLUS Companion to Applied Regression).
• R packages available at CRAN: nlme, geepack, gee, lme4, Design, lgtdl, longitudinal.
• V. Carey's packages: alr (Alternating Logistic Regression) and yags (Yet Another GEE Solver),
• Jim Lindsey's packages: repeated (non-normal repeated measurements models), gnlm (generalized non-linear models).
• NLME (S-PLUS)
• Ord.EE: GEE for correlated ordinal data (S-PLUS). The ordgee function in package geepack does the same thing.
• glmmML: download R package.

SAS

• SAS 9.1 Online and PDF Documentation
• PROC GLIMMIX

Updated: May 15, 2009 © Hongfei Guo