Use nextclade3 for phylogenetic workflow #245
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Description of proposed changes
Phylogenetics workflow still used
nextalignwhich struggled with some of the new INRB sequences.Now using v3 which aligns correctly.
See: https://bedfordlab.slack.com/archives/C03LEFRFDAS/p1714494897695099?thread_ts=1714489800.662829&cid=C03LEFRFDAS for background discussion