Issues

• Support offline workflows

  nextstrain/public#47 · Filter by author joverlee521 opened on Aug 3, 2026
  8

  

• Config option for augur refine divergence units

  nextstrain/public#45 · Filter by author joverlee521 opened on Jul 14, 2026

• Use per-input id_field

  nextstrain/public#44 · Filter by author victorlin opened on Jul 8, 2026
  

• Update discussion forum links

  nextstrain/public#43 · Filter by author victorlin opened on Jul 1, 2026

• Add dependabot.yml to new repos

  nextstrain/public#41 · Filter by author victorlin opened on May 19, 2026

• Customize input node data for augur export

  nextstrain/public#40 · Filter by author joverlee521 opened on Apr 1, 2026

• pathogens: Update PPX builds to use OPEN data in default config

  nextstrain/public#36 · Filter by author joverlee521 opened on Feb 5, 2026

• Add epitope coloring for existing pathogens

  nextstrain/public#35 · Filter by author joverlee521 opened on Feb 3, 2026

• Enforce hierarchy in clade assignments

  nextstrain/public#34 · Filter by author joverlee521 opened on Dec 24, 2025

• Output filter/subsample log

  nextstrain/public#33 · Filter by author joverlee521 opened on Dec 4, 2025

• Add geographic streamtrees support to relevant pathogens

  nextstrain/public#32 · Filter by author joverlee521 opened on Dec 1, 2025

• Replace assign-colors.py

  nextstrain/public#30 · Filter by author joverlee521 opened on Oct 21, 2025

• Use Pathoplexus

  nextstrain/public#29 · Filter by author victorlin opened on Oct 17, 2025
  3

• Use augur subsample

  nextstrain/public#26 · Filter by author victorlin opened on Sep 25, 2025

• Define a schema for workflow config files

  nextstrain/public#46 · Filter by author victorlin opened on Sep 24, 2025
  6

  

• Add/update multiple input support for existing pathogens

  nextstrain/public#25 · Filter by author joverlee521 opened on Sep 23, 2025

• Output filtered metadata

  nextstrain/public#24 · Filter by author victorlin opened on Sep 15, 2025
  1

• Add/update CHANGELOG for existing pathogens

  nextstrain/public#22 · Filter by author joverlee521 opened on Jun 16, 2025

• Standardize scripts to parse metadata from strain names

  nextstrain/public#21 · Filter by author victorlin opened on May 16, 2025
  2

• Use Pyright as the sole type checker in Python codebases

  nextstrain/public#19 · Filter by author victorlin opened on Mar 10, 2025
  1

• Remove use of ncov-ingest geolocation rules

  nextstrain/public#17 · Filter by author joverlee521 opened on Feb 7, 2025
  2

  

• Update NCBI TaxIDs

  nextstrain/public#13 · Filter by author joverlee521 opened on Dec 12, 2024
  2

• Add frequencies panel to existing pathogens

  nextstrain/public#6 · Filter by author genehack opened on Nov 8, 2024

• Replace set_final_strain_name.py

  nextstrain/public#5 · Filter by author victorlin opened on Aug 14, 2024
  2

  

• Workflows as programs

  nextstrain/public#1 · Filter by author genehack opened on Aug 14, 2024
  8