Summarize haplotype coverage by titer references using frequencies per haplotype from all available data #173
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Description of proposed changes
Replaces the current table of derived haplotype frequencies and titer references that is based on a subsampled HA tree with a table based on all available sequences during the same time period.
With the latest version of Nextclade, we can determine derived haplotype strings per record from a Nextclade annotations file with columns for clade and mutations relative to each clade. We can then calculate haplotype frequencies from all available data instead of a subset of data used to build a tree.
Development checklist
Related issue(s)
Related to #130
Depends on nextstrain/nextclade#1492
Checklist