In this workshop, Jacob Landis will go through the basics of SNP calling in the Discovery Environment. He will talk about what can be done with a SNP dataset and why this approach may be more beneficial than other methods for particular projects. He will cover experimental design in relation to generating the necessary sequencing data and what biases may exist in different methods. The workshop will include hands-on tutorials to walk through de novo and reference-based approaches to SNP calling with some common programs. Finally, participants will start exploring how to filter the dataset to address specific questions and work through one example of downstream analyses.