Skip to content

Nextstrain build for monkeypox virus

License

Notifications You must be signed in to change notification settings

BryanTegomoh/monkeypox

 
 

Repository files navigation

Nextstrain repository for mpox virus

pre-commit.ci status

This repository contains three workflows for the analysis of mpox virus (MPXV) data:

  • ingest/ - Download data from GenBank, clean and curate it and upload it to S3
  • phylogenetic/ - Filter sequences, align, construct phylogeny and export for visualization
  • nextclade/ - Make Nextclade datasets for nextstrain/nextclade_data

Each folder contains a README.md with more information. The results of running both workflows are publicly visible at nextstrain.org/mpox.

Installation

Follow the standard installation instructions for Nextstrain's suite of software tools.

Quickstart

Run the default phylogenetic workflow via:

cd phylogenetic/
nextstrain build .
nextstrain view .

Documentation

About

Nextstrain build for monkeypox virus

Resources

License

Stars

Watchers

Forks

Releases

No releases published

Packages

No packages published

Languages

  • Python 85.3%
  • Shell 14.7%