An R Cookbook for Public Health
Course Materials for PHC 6099: ‘R Computing for Health Sciences’
0.1 Source Code for PHC6099 Course Notes
This material is for the course “R Computing for Health Sciences”. The course notes are published here: https://gabrielodom.github.io/PHC6099_rBiostat/
0.1.1 Topics
The chapters are:
- Exploring Data
ggplot2::mosaic plots, histograms, and violin plotsggplot2::scatterplots and facetsskimr::table1::gtsummary::
- One-Sample Tests
- \(Z\)-test
- Paired \(t\)-test
- Paired Wilcoxon test
- Transformations to Normality
- McNemar’s Test
- Fisher’s Exact Test
- Chi-Square Goodness of Fit
- Bootstrapped Confidence Intervals
- Two-Sample Tests
- \(t\)-test
- Welch’s \(t\)-test
- Mann-Whitney \(U\) test
- Cochran’s \(Q\) test
- \(\chi^2\) Test for Independence
- ANOVA and Linear Regression
- One-Way ANOVA
- Two-way ANOVA
- Welch’s ANOVA
- Kruskal-Wallace Test
- Tukey HSD Post-Hoc Test
- Repeated Measures ANOVA
- Random Intercept Models
- Correlation Matrices and Covariances
- Multiple Regression (linear)
- Polynomial regression
- Generalized Linear Models
- Generalized Linear Models: Binary
- Generalized Linear Models: Ordered
- Generalized Linear Models: Count (Poisson)
- Generalized Linear Models: Count (Negative Binomial)
- Special Topics
- Linear Mixed Effects Models
- Structural Equation Models
- Cox Proportional Hazards Regression
- (TBD) Multivariate Methods for Genetics/Genomics
- Ridge, LASSO, and Elastic Net Regression
- Power Calculations (in progress)
0.1.2 Lesson Outline
This is a shell of a lesson that can be copied and pasted for new lessons (or to edit and clean up existing lessons). If you copy this shell, then change all the headings from level 4 to 2. Replace <the method> with the name of your method, or its abbreviation. The file lessons/00_lesson_template.qmd has a .qmd template with these sections.