Amazon public AMI for this tutorial is "dataCgen-qc".
Wrangling genomics trains novice learners on a variant calling workflow. Participants will learn how to evaluate sequence quality and what to do if it is not good. We will then cover aligning reads to a genome, and calling variants, as well as discussing different file formats. Results will be visualized. Finally, we will cover how to automate the process by building a shell script.
All participants should agree to abide by the Data Carpentry Code of Conduct.
Wrangling genomics is authored and maintained by the community.
Please cite as:
Erin Alison Becker, Taylor Reiter, Fotis Psomopoulos, Sheldon John McKay, Jessica Elizabeth Mizzi, Jason Williams, Winni Kretzschmar. (2019, June). datacarpentry/wrangling-genomics: Data Carpentry: Genomics data wrangling and processing, June 2019 (Version v2019.06.1). Zenodo. http://doi.org/10.5281/zenodo.3260609