6 Population structure

In this lab, we’ll perform principal component analysis (PCA) to visualize how genetic variation segregates between populations.

6.0.0.1 Learning objectives

After completing this chapter, you’ll be able to:

1. Describe the data stored in a Variant Call Format (VCF) file.
2. Plot and interpret an allele frequency spectrum.
3. Perform and visualize the results of a principal component analysis.

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