40 A crash course in SARS-CoV-2 bioinformatics

Over the last year we've learnt a lot about SARS-CoV-2 genomics. Lee extracts all the insider knowledge from our brains and we give him the honest truth to his probing questions. We cover: Pipelines for SARS-CoV-2 Archives & metadata Read filtering Assembly vs consensus Amplicon data analysis Controls If things look too good Coverage .... Some URLs: https://github.com/connor-lab/ncov2019-artic-nf https://github.com/jts/ncov-tools https://github.com/lskatz/SARS-CoV-2-trueTree