Repositories list

• ppx-plots

  Public
  Plots of Pathoplexus data

  HTML

  •22 forks•22 stars•00 issues•00 pull requests•Updated Apr 25, 2026Apr 25, 2026

• EV-clade-algorithm

  Public
  Optimized algorithm to create new clade nomenclature for Enteroviruses. Based on algorithm developed for Influenza by Richard Neher and colleagues: https://gith…

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 24, 2026Apr 24, 2026

• ses2026

  Public
  Website for 1st SES

  SCSS

  •00 forks•00 stars•00 issues•11 pull request•Updated Apr 22, 2026Apr 22, 2026

• template_nextstrain

  Public template
  Template for building your own Nextstrain workflow

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• nextclade_EVA

  Public
  Nextclade Dataset for all Enterovirus A genotypes

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• HCoV_229E

  Public
  Python

  •

  BSD 2-Clause "Simplified" License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 17, 2026Apr 17, 2026

• HCoV_OC43

  Public
  Python

  •

  BSD 2-Clause "Simplified" License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 17, 2026Apr 17, 2026

• hodcroftlab

  Public
  Website for hodcroft lab

  SCSS

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• covariants

  Public
  Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.

  trackingmutationvariants+ 6

  trackingmutationvariantsnextstraincovid-19covid19sars-cov-2sarscov2mutation-distribution

  Python

  •

  GNU Affero General Public License v3.0

  •109109 forks•323323 stars•7474 issues•2929 pull requests•Updated Apr 15, 2026Apr 15, 2026

• coxsackievirus_a10

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 9, 2026Apr 9, 2026

• simplot-cl

  Public
  Python

  •

  GNU Affero General Public License v3.0

  •00 forks•88 stars•00 issues•00 pull requests•Updated Apr 8, 2026Apr 8, 2026

• enterovirus_a71

  Public
  Snakemake pipeline for creating interactive real-time phylogenetic trees

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 26, 2026Feb 26, 2026

• coxsackievirus_a16

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 6, 2026Feb 6, 2026

• nextclade-yellow-fever

  Public
  Nextclade build for Yellow Fever Virus

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 5, 2026Feb 5, 2026

• nextclade_a71

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 8, 2026Jan 8, 2026

• coxsackievirus_a6

  Public
  Code for Coxsackievirus A6 build on nextstrain.org

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 1, 2025Dec 1, 2025

• evd68-converter

  Public
  JavaScript

  •00 forks•00 stars•00 issues•00 pull requests•Updated 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

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 24, 2025Jun 24, 2025

• compare-alignments

  Public
  Guide of comparing alignments made by different methods/parameters

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 11, 2025Mar 11, 2025

• poliovirus_recombination

  Public
  Phylogenetics and recombination analysis of Enterovirus C with a focus on vaccine-derived polioviruses

  Python

  •00 forks•00 stars•00 issues•11 pull request•Updated Mar 11, 2025Mar 11, 2025

• evd68_demo

  Public
  Demo files for EVD68 build

  00 forks•00 stars•00 issues•00 pull requests•Updated May 2, 2024May 2, 2024