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Merge branch 'master' of https://github.com/flu-crew/octoFLU
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@arendsee
arendsee committed Nov 2, 2021
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[![Docker Automated build](https://img.shields.io/docker/cloud/build/flucrew/octoflu.svg)](https://hub.docker.com/r/flucrew/octoflu/) [![DockerHub Pulls](https://img.shields.io/docker/pulls/flucrew/octoflu.svg)](https://hub.docker.com/r/flucrew/octoflu/)

## UPDATE May 2021
Reference database has been updated to include N2 clade names (i.e., 2002A vs 2002B; 1998A vs 1998B). [See Zeller et al. Coordinated evolution between N2 neuraminidase and H1 and H3 hemagglutinin genes increased influenza A virus genetic diversity in swine.](https://www.biorxiv.org/content/10.1101/2020.05.29.123828v1)

## Use
Determines evolutionary origin of influenza A virus genes through inference of maximum likelihood tree and then assignment of a defined genetic clade based on nearest neighbor determined by patristic distances.

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