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Volcano plot

Next, you will create a volcano plot to visualize the extent of differential expression in the leukemia study, which displays the log odds of differential expression on the y-axis versus the log fold change on the x-axis.

This exercise is part of the course

Differential Expression Analysis with limma in R

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Exercise instructions

The fitted model object of the leukemia study from Chapter 2, fit2, has been loaded in your workspace. The limma package is already loaded.

  • Create a volcano plot that highlights the top 5 genes.

  • Label the top 5 genes with their gene symbols by passing the column symbol of the data frame fit2$genes to the argument names.

Hands-on interactive exercise

Have a go at this exercise by completing this sample code.

# Create a volcano plot. Highlight the top 5 genes
___(fit2, highlight = ___, names = ___)
Edit and Run Code