This repository holds project information and code for the 2022 incoming BMEB grad students bootcamp.
Our mini-project will have two parts:
In part 1, you will work individually to assemble a covid genome, call variants against the covid reference, and use USHER to determine what strain of the virus your mystery assembly belongs to.
Instructions can be found in covid_assembly.md
In part 2, you have the option to research a COVID related question that interests you, ideally making use of the assembly you created in part 1. You may work in groups of 2-3, or individually. Ultimately, the goal is to have interesting results to present to your fellow bootcampers on the last day. This part will be less structured than part 1, to give you the opportunity to ask your own research questions.
We've set up some preliminary analyses in three different research areas to get you started. If none of these interest you, and you have your own idea, please feel free to follow that!