Seeding by tree - #626

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seeding-by-tree

Commits on Jul 28, 2026

Add optional per-seed match dates to include_samples
jeromekelleher
committed
5635246
Harden seed handling: error on missing seeds, fully detach future nodes
jeromekelleher
committed
2656af6

Commits on Jul 30, 2026

Reimplement seeding as tree-based sample groups
jeromekelleher
committed
71fd049
Fix retrospective matching on days with no new samples
jeromekelleher
committed
405a3df
Rename include_samples to seed_groups
jeromekelleher
committed
0bb7184
Add a SeedGroup class
jeromekelleher
committed
7e0575b
Separate seed processing from the standard pipeline
jeromekelleher
committed
7e7db12
Tidy up around the seed group code
jeromekelleher
committed
2e24bc5
Ignore FASTA index and editor swap files
jeromekelleher
committed
82ffb20
Simplify seed group tree inference
jeromekelleher
committed
951c46f