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  3. Differential Expression Analysis with limma in R

Exercise

Volcano plot

Now you will visualize the extent of differential expression for each contrast with a volcano plot, which displays the log odds of differential expression on the y-axis versus the log fold change on the x-axis.

Instructions

100 XP

The fitted model object fit2 has been loaded in your workspace. The limma package is already loaded.

  • Access the gene symbols (symbol) from the data frame fit2$genes.

  • Create a volcano plot that highlights the top 5 genes for each of the 3 contrasts.