Add Clade-I build - Githubissues

nextstrain / mpox

Nextstrain build for mpox virus

https://nextstrain.org/mpox

MIT License

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Add Clade-I build #254

Closed jameshadfield closed 3 months ago

jameshadfield commented 4 months ago

Adds a Clade-I build. The rooting is currently using least-squares (clock vs div). Starting this work in preparation for new DRC sequences (not yet submitted). Preview build at nextstrain.org/staging/mpox/clade-I - divergence view looks good, temporal less so.

Todo

[x] check rooting
[x] GitHub action for automation
[x] Check validity of re-using clock rate from hmpxv1 (invalid - as I presumed - now using an inferred rate from clade-I samples when excluding clade-Ib)

jameshadfield commented 3 months ago

See this slack thread (private) for more review comments.