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Rework phylogenetic workflow #16

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@victorlin victorlin commented Feb 6, 2025

Description of proposed changes

See commits and linked issue for details.

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Related issue(s)

Closes #12

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@victorlin victorlin self-assigned this Feb 6, 2025
This was broken in the previous commit that shuffled things around to
conform to pathogen repo guide. Get it working again taking ingest
results as input.

Dataset maintainers and description have been updated.
Refactor the workflow to handle multiple outbreaks keyed on name,
starting with the current one keyed on 'west-africa-2014'.

At least initially, there are only a few differences between outbreak
datasets.
@victorlin victorlin force-pushed the victorlin/phylogenetic branch from 622dd99 to 46bde81 Compare February 6, 2025 06:07
@victorlin victorlin linked an issue Feb 7, 2025 that may be closed by this pull request
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Rework phylogenetic workflow
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