This repository contains three workflows for the analysis of measles virus data:
ingest/
- Download data from GenBank, clean and curate itphylogenetic/
- Filter sequences, align, construct phylogeny and export for visualizationnextclade/
- Create nextclade datasets
Each folder contains a README.md with more information. The results of running both workflows are publicly visible at nextstrain.org/measles.
Follow the standard installation instructions for Nextstrain's suite of software tools.
Run the default phylogenetic workflow via:
cd phylogenetic/
nextstrain build .
nextstrain view .