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j23414deleted update-subsampling • 
4 days ago

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j23414deleted update-subsampling2 • 
16 days ago

Phylogenetic: Increase sampling in the all tree to nearly 4K tips (#91

Pull request merge
j23414pushed 1 commit to main • 8b784e8…de4dd02 • 
16 days ago

Phylogenetic: Use group-by with subsample-max-sequences

j23414pushed 1 commit to update-subsampling2 • 05b014e…0d73b74 • 
19 days ago

Phylogenetic: Update subsampling

j23414created update-subsampling2 • 05b014e • 
27 days ago

Phylogenetic: Filter to 4k sequences

j23414pushed 1 commit to update-subsampling • 8b784e8…14e3d40 • 
28 days ago

Latest alignment to Pathogen repo guide and add frequency panel #88

j23414created update-subsampling • 8b784e8 • 
29 days ago

Deleted branch

j23414deleted pathogen-repo-guide • 
29 days ago

Latest alignment to Pathogen repo guide and add frequency panel #88

Pull request merge
j23414pushed 11 commits to main • 6f9144f…8b784e8 • 
29 days ago

Deleted branch

j23414deleted update-2024 • 
on Jan 2

Drop set_final_strain_name.py

Force push
j23414force pushed to pathogen-repo-guide • 357eea4…b8b2fa3 • 
on Dec 31, 2024

Drop set_final_strain_name.py

Force push
j23414force pushed to pathogen-repo-guide • 34bad54…357eea4 • 
on Dec 31, 2024

Drop set_final_strain_name.py

j23414pushed 1 commit to pathogen-repo-guide • b708936…34bad54 • 
on Dec 31, 2024

Tip frequency strain ID must match the displayed strain ID in the fin…

j23414pushed 1 commit to pathogen-repo-guide • 65520e5…b708936 • 
on Dec 31, 2024

Automatically drop is_lab_host=true records during phylogenetic workflow

j23414created update-2024 • 4acba65 • 
on Dec 30, 2024

Deleted branch

j23414deleted update-2024 • 
on Dec 30, 2024

Exclude outlier sequences flagged by Hill et al 2024 (#84)

j23414created update-2024 • 6f9144f • 
on Dec 30, 2024

Add frequencies panels

Force push
j23414force pushed to pathogen-repo-guide • 98d7a19…65520e5 • 
on Dec 20, 2024

Update tip frequency min date

j23414pushed 1 commit to pathogen-repo-guide • 2b23d58…98d7a19 • 
on Dec 20, 2024

Fixup: display frequencies

j23414pushed 1 commit to pathogen-repo-guide • 74c0af7…2b23d58 • 
on Dec 19, 2024

WIP: Add frequencies panel

j23414pushed 1 commit to pathogen-repo-guide • 4acba65…74c0af7 • 
on Dec 18, 2024

Automatically drop is_lab_host=true records during phylogenetic workflow

j23414pushed 1 commit to pathogen-repo-guide • a56685a…4acba65 • 
on Dec 18, 2024

Phylogenetic: Change genbank_accession to accession

Force push
j23414force pushed to pathogen-repo-guide • 073bcf2…a56685a • 
on Dec 18, 2024

Fixup

j23414pushed 1 commit to pathogen-repo-guide • 9ca57b3…073bcf2 • 
on Dec 18, 2024

Fixup: upload ncbi.ndjson

j23414pushed 1 commit to pathogen-repo-guide • 8a212f4…9ca57b3 • 
on Dec 18, 2024

Phylogenetic: Change genbank_accession to accession

j23414pushed 1 commit to pathogen-repo-guide • ce22278…8a212f4 • 
on Dec 18, 2024

Rename phylogenetic/config to phylogenetic/defaults

j23414pushed 1 commit to pathogen-repo-guide • f9f3252…ce22278 • 
on Dec 18, 2024

Ingest: change genbank_accession to accession

j23414pushed 1 commit to pathogen-repo-guide • f5c2fdc…f9f3252 • 
on Dec 18, 2024

Use authors and full_authors fields

j23414pushed 2 commits to pathogen-repo-guide • 4703c52…f5c2fdc • 
on Dec 17, 2024

Ingest: Re-align to pathogen-repo-guide

Force push
j23414force pushed to pathogen-repo-guide • 9c7261d…4703c52 • 
on Dec 17, 2024