This repository contains the essential files for creating a nextstrain build for running and visualizing phylogeographic analyses of pathogen spread using genomic data. Edit this README file as you wish, and create a description of your project (taking advantage of the GitHub Markdown, topic and subtopic structure).
Refer to the original nextstrain page for instructions on how to install augur (bioinformatics pipeline) and auspice (visualization tool).
Click here to download the course handout with a step-by-step tutorial on how to prepare your working directory, run augur and visualize the results with auspice. Please check this webiste for more information about the distinct functionalities of nextstrain.
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This project is licensed under the MIT License.