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  3. Differential Expression Analysis with limma in R

Exercise

Create a boxplot

Explore the leukemia data set by visualizing the expression levels of the first gene with boxplots for the patients with stable and progressive leukemia.

Instructions

100 XP

The expression matrix (x), feature data (f), and phenotype data (p) are loaded in your workspace.

  • Subset x to only include the first gene (i.e. row) and insert it left of the ~ in the formula (y-axis).

  • Subset p to only include the column "Disease" and insert it right of the ~ in the formula (x-axis).

  • Subset f to only include the first gene (i.e. row) and the column "symbol". Use this as the argument to main for the plot title.