This repo contains code and results used in our study describing the introduction and spread of SARS-CoV-2 lineage B.1.1.7 in Brazil (https://virological.org/t/emergence-and-spread-of-sars-cov-2-lineage-b-1-1-7-in-brazil/638).
The pipeline available here is currently being optimized and prepared for publication. Please refer to this github page in any use case.