This module is designed as a foundation for the quantitative genetics and QTL modules as well as for the association mapping modules. It assumes the material in Module 1 and it will cover the basic commands in R.  It covers linear regression and analysis of variance. This module includes both lectures and interactive data analysis using R. Specific topics discussed are: simple linear regression; multiple linear regression; residual analysis; transformations; one-way ANOVA; two-way ANOVA; analysis of covariance; multiple comparisons.