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    • ppx-plots

      Public
      Plots of Pathoplexus data
      HTML
      2200Updated Apr 25, 2026Apr 25, 2026
    • Optimized algorithm to create new clade nomenclature for Enteroviruses. Based on algorithm developed for Influenza by Richard Neher and colleagues: https://gith…
      Python
      0000Updated Apr 24, 2026Apr 24, 2026
    • ses2026

      Public
      Website for 1st SES
      SCSS
      0001Updated Apr 22, 2026Apr 22, 2026
    • template_nextstrain

      Public template
      Template for building your own Nextstrain workflow
      Python
      1000Updated Apr 20, 2026Apr 20, 2026
    • Nextclade Dataset for all Enterovirus A genotypes
      Python
      0000Updated Apr 20, 2026Apr 20, 2026
    • HCoV_229E

      Public
      Python
      BSD 2-Clause "Simplified" License
      0000Updated Apr 17, 2026Apr 17, 2026
    • HCoV_OC43

      Public
      Python
      BSD 2-Clause "Simplified" License
      0000Updated Apr 17, 2026Apr 17, 2026
    • Website for hodcroft lab
      SCSS
      0000Updated Apr 15, 2026Apr 15, 2026
    • Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
      Python
      GNU Affero General Public License v3.0
      1093237429Updated Apr 15, 2026Apr 15, 2026
    • Python
      0000Updated Apr 9, 2026Apr 9, 2026
    • Python
      GNU Affero General Public License v3.0
      0800Updated Apr 8, 2026Apr 8, 2026
    • Snakemake pipeline for creating interactive real-time phylogenetic trees
      Python
      1000Updated Feb 26, 2026Feb 26, 2026
    • Python
      0000Updated Feb 6, 2026Feb 6, 2026
    • Nextclade build for Yellow Fever Virus
      Python
      0000Updated Feb 5, 2026Feb 5, 2026
    • Python
      0000Updated Jan 8, 2026Jan 8, 2026
    • Code for Coxsackievirus A6 build on nextstrain.org
      Python
      0000Updated Dec 1, 2025Dec 1, 2025
    • JavaScript
      0000Updated Jul 30, 2025Jul 30, 2025
    • EVclades

      Public
      EVclades is an Enterovirus-adapted version of Art Poon’s fluclades pipeline for automated clade assignment.
      Jupyter Notebook
      0000Updated Jun 24, 2025Jun 24, 2025
    • Guide of comparing alignments made by different methods/parameters
      Python
      0000Updated Mar 11, 2025Mar 11, 2025
    • Phylogenetics and recombination analysis of Enterovirus C with a focus on vaccine-derived polioviruses
      Python
      0001Updated Mar 11, 2025Mar 11, 2025
    • Demo files for EVD68 build
      0000Updated May 2, 2024May 2, 2024
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