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2026-07-07--14-07-11Z

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@github-actions github-actions released this 07 Jul 14:07
2026-07-07--14-07-11Z
3c580a3

This release contains changes for datasets:

  • Mpox virus (All clades) (nextstrain/mpox/all-clades)
  • Mpox virus (Clade I) (nextstrain/mpox/clade-i)
  • Mpox virus (Clade IIb) (nextstrain/mpox/clade-iib)
  • Mpox virus (Lineage B.1) (nextstrain/mpox/lineage-b.1)

Mpox virus (All clades) (nextstrain/mpox/all-clades)

  • Breaking change: Clade Ib outbreak sh2023 now has lineages defined. Those lineages follow the same scheme as the existing clade IIb outbreak sh2017 lineage system. The root lineage is A, B might become an alias for another lineage than in IIb/sh2017. Hence, to unambiguously refer to a lineage, the outbreak must be included as well. To faciliate this, a new outbreakLineage field has been added that concatenates outbreak and lineage separated by a slash, e.g. sh2017/B.1. Existing clade, outbreak, and lineage fields remain unchanged - except that lineage A is now assigned to both clade Ib/sh2023 lineage A and clade IIb/sh2017 lineage A. The new outbreakLineage field is the way to unambiguously refer to a lineage.
  • New sequences that have become available on Pathoplexus between December 2025 and June 2026 are now included in the dataset.

Mpox virus (Clade I) (nextstrain/mpox/clade-i)

  • Breaking change: Clade Ib outbreak sh2023 now has lineages defined. Those lineages follow the same scheme as the existing clade IIb outbreak sh2017 lineage system. The root lineage is A, and B might become an alias for another lineage than in IIb/sh2017. Hence, to unambiguously refer to a lineage, the outbreak must be included as well. To facilitate this, a new outbreakLineage field has been added that concatenates outbreak and lineage separated by a slash, e.g. sh2023/A.1. Existing clade, outbreak, and lineage fields remain unchanged - except that lineage A is now assigned to both clade Ib/sh2023 lineage A and (in datasets that contain it) clade IIb/sh2017 lineage A. The new outbreakLineage field is the way to unambiguously refer to a lineage.
  • New sequences that have become available on Pathoplexus between December 2025 and June 2026 are now included in the dataset.
  • The range 185990-186092 is no longer masked for placement. It is informative, reliable and relevant for assignment sh2023/A.1.

Mpox virus (Clade IIb) (nextstrain/mpox/clade-iib)

  • A new outbreakLineage field has been added that concatenates outbreak and lineage separated by a slash, e.g. sh2017/B.1. It unambiguously identifies a lineage across outbreaks: clade Ib outbreak sh2023 now also has a lineage system that reuses the same lineage names (e.g. root lineage A) as clade IIb outbreak sh2017. Existing clade, outbreak, and lineage fields remain unchanged. Clade Ib sequences are not part of this clade IIb dataset; use nextstrain/mpox/all-clades or nextstrain/mpox/clade-i for those.
  • New sequences that have become available on Pathoplexus between December 2025 and June 2026 are now included in the dataset.

Mpox virus (Lineage B.1) (nextstrain/mpox/lineage-b.1)

  • A new outbreakLineage field has been added that concatenates outbreak and lineage separated by a slash, e.g. sh2017/B.1. It unambiguously identifies a lineage across outbreaks: clade Ib outbreak sh2023 now also has a lineage system that reuses the same lineage names (e.g. root lineage A) as clade IIb outbreak sh2017. Existing clade, outbreak, and lineage fields remain unchanged.
  • New sequences that have become available on Pathoplexus between December 2025 and June 2026 are now included in the dataset.
Assets 6
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