2025-12-16--20-07-31Z

This release contains changes for datasets:

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

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

• Fix clade labeling of some clade Ia sequences wrongly reported as unassigned instead of Ia.
• Add some newly released sequences.

2025-12-12--16-44-41Z

This release contains changes for datasets:

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

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

• Add placement priors to discourage attachment at the recombinant clade Ib/IIb. Previously, short sequences would be called recombinant even if they could just as well be clade Ib (which they more likely are).

2025-12-10--14-52-38Z

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: outbreak nomenclature now follows the system described in Ruis et al. (2025). As a result, outbreak hMPXV-1 is now called sh2017. In addition, the clade Ib outbreak is labeled as outbreak sh2023, and the clade Ia outbreak described in Wawina-Bokalanga et al. (2025) is labeled as outbreak sh2024.
• The clade Ib/IIb recombinant described in Pullan et al. (2025) is included in the reference tree with the ad-hoc clade and outbreak labels Ib/IIb and rec2025, respectively.

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

• Breaking change: outbreak nomenclature now follows the system described in Ruis et al. (2025). As a result, outbreak hMPXV-1 is now called sh2017. In addition, the clade Ib outbreak is labeled as outbreak sh2023, and the clade Ia outbreak described in Wawina-Bokalanga et al. (2025) is labeled as outbreak sh2024.

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

• Breaking change: outbreak nomenclature now follows the system described in Ruis et al. (2025). As a result, outbreak hMPXV-1 is now called sh2017.

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

• Breaking change: outbreak nomenclature now follows the system described in Ruis et al. (2025). As a result, outbreak hMPXV-1 is now called sh2017.

2025-12-10--13-21-04Z

This release contains changes for datasets:

• Enterovirus D68 (enpen/enterovirus/ev-d68)

Enterovirus D68 (enpen/enterovirus/ev-d68)

• Update alignment parameters in pathogen.json:
  • Fix gap extension penalty
  • Enable reverse-complement handling
• Recompute tree topology (ML tree rerun)
• Regenerate mutation labels for all clades
• Update reference example sequences

2025-12-05--10-40-14Z

This release contains changes for datasets:

• SARS-CoV-2 (nextstrain/sars-cov-2/wuhan-hu-1/orfs)
• SARS-CoV-2 (Mature proteins) (nextstrain/sars-cov-2/wuhan-hu-1/proteins)
• SARS-CoV-2 (BA.2.86) (nextstrain/sars-cov-2/BA.2.86)

SARS-CoV-2 (nextstrain/sars-cov-2/wuhan-hu-1/orfs)

• Add all 299 Pango lineages newly designated between 2025-09-20 and 2025-12-04. Unfold below to see a list of all newly included lineages with their designation dates:

Newly included lineages, with designation date in parentheses

• NW.1.2.6 (2025-09-25)
• XFG.3.19 (2025-09-25)
• XFG.3.20 (2025-09-25)
• XFG.3.22 (2025-09-25)
• XFG.3.21 (2025-09-25)
• XFG.22.2 (2025-09-25)
• MV.3 (2025-09-25)
• MV.1.4.1 (2025-09-25)
• MV.1.7 (2025-09-25)
• MV.1.8 (2025-09-25)
• MV.1.9 (2025-09-25)
• MV.1.3.1 (2025-09-25)
• MV.1.3.2 (2025-09-25)
• PS.3 (2025-09-25)
• XEC.27.2.1 (2025-09-26)
• XEC.27.2.2 (2025-09-26)
• XFJ.6 (2025-09-27)
• XFJ.7 (2025-09-27)
• XFJ.8 (2025-09-27)
• XFJ.9 (2025-09-27)
• XFJ.1.1 (2025-09-27)
• XFJ.1.2 (2025-09-27)
• XFJ.2.2 (2025-09-27)
• XFJ.4.1 (2025-09-27)
• XFJ.3.1 (2025-09-27)
• XFG.5.2.1 (2025-09-27)
• XFG.5.2.2 (2025-09-27)
• QT.1 (2025-09-27)
• QT.1.1 (2025-09-27)
• QT.1.2 (2025-09-27)
• QT.2 (2025-09-27)
• XFG.3.23 (2025-09-27)
• XFG.3.24 (2025-09-27)
• QK.4 (2025-09-27)
• XFG.3.1.6 (2025-09-27)
• XFG.6.3 (2025-09-28)
• XFG.6.4 (2025-09-28)
• XFG.14.1.1 (2025-09-28)
• XFG.14.1.2 (2025-09-28)
• XFG.14.1.3 (2025-09-28)
• PC.2.2.1 (2025-09-28)
• NY.3.7.1 (2025-09-28)
• NY.3.8 (2025-09-28)
• NY.3.1.2 (2025-09-28)
• QU.1 (2025-09-28)
• QU.2 (2025-09-28)
• NY.3.1.3 (2025-09-28)
• PQ.35 (2025-09-28)
• KS.1.4 (2025-10-01)
• LB.1.4.2 (2025-10-01)
• NC.2 (2025-10-01)
• NY.21 (2025-10-01)
• XFG.5.1.1 (2025-10-01)
• XFG.5.1.2 (2025-10-01)
• XFJ.5 (2025-10-01)
• PQ.2.4.1 (2025-10-02)
• PQ.2.4.2 (2025-10-02)
• PQ.2.7 (2025-10-02)
• PQ.2.7.1 (2025-10-02)
• PQ.2.8 (2025-10-02)
• PQ.2.8.1 (2025-10-02)
• XFG.3.1.7 (2025-10-02)
• PC.5 (2025-10-02)
• QV.1 (2025-10-02)
• QV.2 (2025-10-02)
• XFV.2 (2025-10-02)
• PQ.2.5.1 (2025-10-02)
• PQ.2.5.2 (2025-10-02)
• XFG.4.1.2 (2025-10-03)
• XFG.4.1.3 (2025-10-03)
• XFG.4.1.4 (2025-10-03)
• XFG.4.3 (2025-10-03)
• XFG.4.4 (2025-10-03)
• XFG.23.1.1 (2025-10-03)
• XFG.23.1.2 (2025-10-03)
• PQ.36 (2025-10-04)
• PQ.10.1.1 (2025-10-04)
• PQ.10.1.2 (2025-10-04)
• PQ.10.1.3 (2025-10-04)
• PQ.10.1.4 (2025-10-04)
• PQ.17.3 (2025-10-04)
• PQ.4.6 (2025-10-04)
• PQ.17.4 (2025-10-04)
• PQ.34.1 (2025-10-04)
• PQ.25.3 (2025-10-04)
• PQ.25.3.1 (2025-10-04)
• PQ.37 (2025-10-04)
• XFW.1.1 (2025-10-05)
• XFW.1.2 (2025-10-05)
• XFG.3.18.1 (2025-10-05)
• XFG.3.4.5 (2025-10-05)
• XFG.3.4.6 (2025-10-05)
• XFG.3.4.7 (2025-10-05)
• XFG.3.4.8 (2025-10-05)
• XFG.3.4.9 (2025-10-05)
• XFG.9.4.1 (2025-10-05)
• XFG.9.4.2 (2025-10-05)
• XFG.6.2.1 (2025-10-05)
• XFG.6.5 (2025-10-05)
• XFG.6.6 (2025-10-05)
• XGC (2025-10-06)
• XFG.6.7 (2025-10-07)
• XFG.6.5.1 (2025-10-07)
• XFG.6.8 (2025-10-07)
• XEC.18.1.1 (2025-10-07)
• XFG.3.16.1 (2025-10-07)
• QT.3 (2025-10-07)
• XFG.10.2 (2025-10-10)
• XFG.10.3 (2025-10-10)
• XFG.10.4 (2025-10-10)
• XFG.34 (2025-10-10)
• XFG.5.2.3 (2025-10-10)
• XFG.5.2.4 (2025-10-10)
• XFG.5.2.5 (2025-10-10)
• QQ.1 (2025-10-10)
• XFG.14.2.1 (2025-10-10)
• XFG.14.4 (2025-10-10)
• PQ.2.9 (2025-10-10)
• XFC.3.1 (2025-10-10)
• XFC.3.2 (2025-10-10)
• XFC.3.3 (2025-10-10)
• XFG.22.3 (2025-10-10)
• XFG.8.1 (2025-10-10)
• XFG.8.2 (2025-10-10)
• XFG.8.3 (2025-10-10)
• XFG.5.4 (2025-10-11)
• XFG.5.4.1 (2025-10-11)
• QW.1 (2025-10-11)
• XFG.5.1.3 (2025-10-11)
• XFG.5.1.4 (2025-10-11)
• XFG.3.25 (2025-10-11)
• XFG.5.1.5 (2025-10-11)
• XFG.35 (2025-10-11)
• XFG.3.1.8 (2025-10-11)
• XFG.3.1.9 (2025-10-11)
• XFG.3.1.10 (2025-10-11)
• XFG.5.1.6 (2025-10-11)
• XFG.5.2.6 (2025-10-11)
• XFG.3.26 (2025-10-11)
• XFG.2.4 (2025-10-11)
• QK.1.1 (2025-10-11)
• XFG.8.4 (2025-10-12)
• XFG.8.5 (2025-10-12)
• XFG.3.27 (2025-10-12)
• XFG.3.27.1 (2025-10-12)
• XFG.3.27.2 (2025-10-12)
• XFG.3.27.3 (2025-10-12)
• LF.7.1.15 (2025-10-12)
• PL.6 (2025-10-12)
• XFG.4.1.5 (2025-10-12)
• QY.1 (2025-10-12)
• NY.26 (2025-10-13)
• NY.26.1 (2025-10-13)
• NY.26.2 (2025-10-13)
• NY.26.4 (2025-10-13)
• NY.26.3 (2025-10-13)
• PD.1.2.1 (2025-10-13)
• XFN.2.1 (2025-10-27)
• XFJ.1.3 (2025-10-27)
• XFJ.3.1.1 (2025-10-27)
• XFJ.3.1.2 (2025-10-27)
• XFJ.3.2 (2025-10-27)
• XFG.9.3.1 (2025-10-27)
• XFG.9.3.2 (2025-10-27)
• QF.1.1 (2025-10-27)
• QF.1.1.1 (2025-10-27)
• QF.2 (2025-10-27)
• QF.3 (2025-10-27)
• QF.4 (2025-10-27)
• QF.5 (2025-10-27)
• XFG.3.28 (2025-10-27)
• XFG.3.7.1 (2025-11-01)
• QF.5.1 (2025-11-01)
• QF.6 (2025-11-01)
• XFG.3.29 (2025-11-01)
• XFG.3.30 (2025-11-04)
• XFG.3.30.1 (2025-11-04)
• XFG.3.30.2 (2025-11-04)
• XFG.4.5 (2025-11-04)
• XFG.9.6 (2025-11-14)
• XFZ.1 (2025-11-14)
• XFW.1.1.1 (2025-11-14)
• XFY.1 (2025-11-16)
• XFG.8.2.1 (2025-11-16)
• QZ.1 (2025-11-16)
• XFG.7.1.2 (2025-11-16)
• XFG.6.3.1 (2025-11-16)
• XFG.6.3.2 (2025-11-16)
• XFG.6.9 (2025-11-16)
• XFG.6.10 (2025-11-16)
• XFG.6.11 (2025-11-16)
• XFG.6.12 (2025-11-16)
• XFG.3.6.1 (2025-11-16)
• XFG.36 (2025-11-16)
• QW.1.1 (2025-12-01)
• XFJ.8.1 (2025-12-01)
• XFJ.10 (2025-12-01)
• RA.1 (2025-12-01)
• XFJ.3.1.3 (2025-12-01)
• XGD (2025-12-01)
• XFG.3.6.2 (2025-12-01)
• QF.2.1 (2025-12-01)
• XFG.3.10.1 (2025-12-01)
• XFG.3.10.2 (2025-12-01)
• XFG.23.1.3 (2025-12-01)
• RB.1 (2025-12-01)
• RB.2 (2025-12-01)
• XFG.23.1.4 (2025-12-01)
• XFG.23.1.5 (2025-12-01)
• XFG.23.2 (2025-12-01)
• XFG.1.2 (2025-12-01)
• XFG.1.3 (2025-12-01)
• XFC.1.10 (2025-12-01)
• XFC.1.3.1 (2025-12-01)
• XFC.1.11 (2025-12-01)
• XFC.1.12 (2025-12-01)
• XFC.1.2.1 (2025-12-01)
• XFC.4 (2025-12-01)
• PQ.14.1 (2025-12-01)
• PQ.14.1.1 (2025-12-01)
• PQ.14.2 (2025-12-01)
• PQ.14.3 (2025-12-01)
• PQ.14.3.1 (2025-12-01)
• PQ.14.4 (2025-12-01)
• PQ.2.8.2 (2025-12-01)
• RC.1 (2025-12-01)
• RC.2 (2025-12-01)
• PQ.38 (2025-12-01)
• PQ.39 (2025-12-01)
• RD.1 (2025-12-02)
• RD.1.1 (2025-12-02)
• RD.1.2 (2025-12-02)
• RE.1 (2025-12-02)
• RE.1.1 (2025-12-02)
• RE.2 (2025-12-02)
• RE.2.1 (2025-12-02)
• RE.2.2 (2025-12-02)
• PY.7 (2025-12-02)
• RF.1 (2025-12-02)
• RF.2 (2025-12-02)
• RF.3 (2025-12-02)
• RF.4 (2025-12-02)
• LF.7.11.4 (2025-12-02)
• NW.1.8 (2025-12-02)
• RG.1 (2025-12-02)
• RG.1.1 (2025-12-02)
• RG.1.2 (2025-12-02)
• QM.2 (2025-12-02)
• QM.3 (2025-12-02)
• PF.3 (2025-12-02)
• PF.3.1 (2025-12-02)
• PF.4 (2025-12-02)
• PF.5 (2025-12-02)
• NY.7.1.2 (2025-12-02)
• PE.4 (2025-12-02)
• PE.4.1 (2025-12-02)
• PE.1.4.3 (2025-12-02)
• XFG.14.5 (2025-12-03)
• XFG.14.6 (2025-12-03)
• XFG.14.7 (2025-12-03)
• XGE (2025-12-03)
• XFG.3.13.1 (2025-12-03)
• XFG.3.13.2 (2025-12-03)
• XGF (2025-12-03)
• PQ.2.1.1 (2025-12-03)
• PQ.2.1.2 (2025-12-03)
• PQ.2.1.3 (2025-12-03)
• PQ.2.1.4 (2025-12-03)
• PQ.2.1.5 (2025-12-03)
• PQ.2.1.6 (2025-12-03)
• PQ.2.1.7 (2025-12-03)
• PQ.2.10 (2025-12-03)
• PQ.2.1.8 (2025-12-03)
• PQ.2.1.9 (2025-12-03)
• PQ.2.1.10 (2025-12-03)
• PQ.2.1.11 (2025-12-03)
• PQ.2.1.12 (2025-12-03)
• RH.1 (2025-12-03)
• PQ.17.5 (2025-12-03)
• PQ.17.6 (2025-12-03)
• PQ.17.7 (2025-12-03)
• PQ.17.7.1 (2025-12-03)
• PQ.17.7.2 (2025-12-03)
• PQ.17.8 (2025-12-03)
• PQ.4.6.1 (2025-12-03)
• XFV.3 (2025-12-03)
• XFG.6.3.3 (2025-12-03)
• XFG.1.1.1 (2025-12-03)
• PQ.39.1 (2025-12-03)
• QF.2.2 (2025-12-03)
• QF.2.2.1 (2025-12-03)
• XFG.2.5 (2025-12-03)
• XFG.2.6 (2025-12-03)
• XFG.2.8 (2025-12-03)
• XFG.2.8.1 (2025-12-03)
• XFG.2.7 (2025-12-03)
• XFG.3.31 (2025-12-03)
• XFG.3.31.1 (2025-12-03)
• XFG.3.32 (2025-12-03)

SARS-CoV-2 (Mature proteins) (nextstrain/sars-cov-2/wuhan-hu-1/proteins)

• Add all 299 Pango lineages newly designated between 2025-09-20 and 2025-12-04. Unfold below to see a list of all newly included lineages with their designation dates:

Newly included lineages, with designation date in parentheses

• NW.1.2.6 (2025-09-25)
• XFG.3.19 (2025-09-25)
• XFG.3.20 (2025-09-25)
• XFG.3.22 (2025-09-25)
• XFG.3.21 (2025-09-25)
• XFG.22.2 (2025-09-25)
• MV.3 (2025-09-25)
• MV.1.4.1 (2025-09-25)
• MV.1.7 (2025-09-25)
• MV.1.8 (2025-09-25)
• MV.1.9 (2025-09-25)
• MV.1.3.1 (2025-09-25)
• MV.1.3.2 (2025-09-25)
• PS.3 (2025-09-25)
• XEC.27.2.1 (2025-09-26)
• XEC.27.2.2 (2025-09-26)
• XFJ.6 (2025-09-27)
• XFJ.7 (2025-09-27)
• XFJ.8 (2025-09-27)
• XFJ.9 (2025-09-27)
• XFJ.1.1 (2025-09-27)
• XFJ.1.2 (2025-09-27)
• XFJ.2.2 (2025-09-27)
• XFJ.4.1 (2025-09-27)
• XFJ.3.1 (2025-09-27)
• XFG.5.2.1 (2025-09-27)
• XFG.5.2.2 (2025-09-27)
• QT.1 (2025-09-27)
• QT.1.1 (2025-09-27)
• QT.1.2 (2025-09-27)
• QT.2 (2025-09-27)
• XFG.3.23 (2025-09-27)
• XFG.3.24 (2025-09-27)
• QK.4 (2025-09-27)
• XFG.3.1.6 (2025-09-27)
• XFG.6.3 (2025-09-28)
• XFG.6.4 (2025-09-28)
• XFG.14.1.1 (2025-09-28)
• XFG.14.1.2 (2025-09-28)
• XFG.14.1.3 (2025-09-28)
• PC.2.2.1 (2025-09-28)
• NY.3.7.1 (2025-09-28)
• NY.3.8 (2025-09-28)
• NY.3.1.2 (2025-09-28)
• QU.1 (2025-09-28)
• QU.2 (2025-09-28)
• NY.3.1.3 (2025-09-28)
• PQ.35 (2025-09-28)
• KS.1.4 (2025-10-01)
• LB.1.4.2 (2025-10-01)
• NC.2 (2025-10-01)
• NY.21 (2025-10-01)
• XFG.5.1.1 (2025-10-01)
• XFG.5.1.2 (2025-10-01)
• XFJ.5 (2025-10-01)
• PQ.2.4.1 (2025-10-02)
• PQ.2.4.2 (2025-10-02)
• PQ.2.7 (2025-10-02)
• PQ.2.7.1 (2025-10-02)
• PQ.2.8 (2025-10-02)
• PQ.2.8.1 (2025-10-02)
• XFG.3.1.7 (2025-10-02)
• PC.5 (2025-10-02)
• QV.1 (2025-10-02)
• QV.2 (2025-10-02)
• XFV.2 (2025-10-02)
• PQ.2.5.1 (2025-10-02)
• PQ.2.5.2 (2025-10-02)
• XFG.4.1.2 (2025-10-03)
• XFG.4.1.3 (2025-10-03)
• XFG.4.1.4 (2025-10-03)
• XFG.4.3 (2025-10-03)
• XFG.4.4 (2025-10-03)
• XFG.23.1.1 (2025-10-03)
• XFG.23.1.2 (2025-10-03)
• PQ.36 (2025-10-04)
• PQ.10.1.1 (2025-10-04)
• PQ.10.1.2 (2025-10-04)
• PQ.10.1.3 (2025-10-04)
• PQ.10.1.4 (2025-10-04)
• PQ.17.3 (2025-10-04)
• PQ.4.6 (2025-10-04)
• PQ.17.4 (2025-10-04)
• PQ.34.1 (2025-10-04)
• PQ.25.3 (2025-10-04)
• PQ.25.3.1 (2025-10-04)
• PQ.37 (2025-10-04)
• XFW.1.1 (2025-10-05)
• XFW.1.2 (2025-10-05)
• XFG.3.18.1 (2025-10-05)
• XFG.3.4.5 (2025-10-05)
• XFG.3.4.6 (2025-10-05)
• XFG.3.4.7 (2025-10-05)
• XFG...

2025-12-02--12-30-02Z

This release contains changes for datasets:

• Hepatitis A virus (community/masphl-bioinformatics/hav/vp1-2b-junction)
• Hepatitis A virus (community/masphl-bioinformatics/hav/whole-genome)
• Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/CY121680)
• Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/MW626062)

Hepatitis A virus (community/masphl-bioinformatics/hav/vp1-2b-junction)

Initial release, with GenBank accessed 2025-02-03.

Hepatitis A virus (community/masphl-bioinformatics/hav/whole-genome)

Initial release, with GenBank accessed 2025-02-03.

Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/CY121680)

• Define subclade D.3.1.1

Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/MW626062)

• Define subclade D.3.1.1

2025-11-20--19-02-04Z

This release contains changes for datasets:

• Enterovirus D68 (enpen/enterovirus/ev-d68)

Enterovirus D68 (enpen/enterovirus/ev-d68)

Add citation information to README.md

2025-11-19--20-40-14Z

This release contains changes for datasets:

• Enterovirus D68 (enpen/enterovirus/ev-d68)

Enterovirus D68 (enpen/enterovirus/ev-d68)

Initial release of an Enterovirus D68 dataset for lineage classification!

Read more about Nextclade datasets in the documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html

2025-11-04--15-46-13Z

This release contains changes for datasets:

• Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/CY163680)
• Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/EPI1857216)
• Varicella-Zoster Virus (VZV) (nextstrain/herpes/vzv/NC_001348)

Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/CY163680)

• aliasing of J.2.4.1 as K

Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/EPI1857216)

• aliasing of J.2.4.1 as K

Varicella-Zoster Virus (VZV) (nextstrain/herpes/vzv/NC_001348)

Initial release.

2025-10-22--18-11-36Z

This release contains changes for datasets:

• Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/CY121680)
• Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/MW626062)
• Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/CY163680)
• Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/EPI1857216)
• Influenza B Victoria HA (nextstrain/flu/vic/ha/KX058884)
• Mumps MuV Genotypes (SH gene 315nt region) (nextstrain/mumps/sh)
• Mumps MuV Genotypes (Full genome) (nextstrain/mumps/genome)

Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/CY121680)

• make subclade the default clade like feature, while including a column subclade into the tabular output to maintain backwards compatibility of other pipelines. The previous clade that hasn't been updated in for 2y as now legacy-clade.

Influenza A H1N1pdm HA (nextstrain/flu/h1n1pdm/ha/MW626062)

• make subclade the default clade like feature, while including a column subclade into the tabular output to maintain backwards compatibility of other pipelines. The previous clade that hasn't been updated in for 2y as now legacy-clade.

Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/CY163680)

• add designation of J.2.4.1
• make subclade the default clade like feature, while including a column subclade into the tabular output to maintain backwards compatibility of other pipelines. The previous clade that hasn't been updated in for 2y as now legacy-clade.

Influenza A H3N2 HA (nextstrain/flu/h3n2/ha/EPI1857216)

• add designation of J.2.4.1
• make subclade the default clade like feature, while including a column subclade into the tabular output to maintain backwards compatibility of other pipelines. The previous clade that hasn't been updated in for 2y as now legacy-clade.

Influenza B Victoria HA (nextstrain/flu/vic/ha/KX058884)

• make subclade the default clade like feature, while including a column subclade into the tabular output to maintain backwards compatibility of other pipelines. The previous clade that hasn't been updated in for 2y as now legacy-clade.

Mumps MuV Genotypes (SH gene 315nt region) (nextstrain/mumps/sh)

Remove the duplicate "MuV genotype" column and only use "Clade".

Mumps MuV Genotypes (Full genome) (nextstrain/mumps/genome)

Remove the duplicate "MuV genotype" column and only use "Clade".