ingest: Add lab host fields from NCBI Datasets - Githubissues

nextstrain / lassa

Nextstrain build for Lassa virus

https://nextstrain.org/staging/lassa

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ingest: Add lab host fields from NCBI Datasets #24

Closed j23414 closed 3 months ago

j23414 commented 3 months ago

Description

Copies issue from https://github.com/nextstrain/pathogen-repo-guide/issues/60

Plan

[x] Add is-lab-host and lab-host fields from NCBI Datasets to programmatically exclude lab passaged sequences from builds
[x] Update augur filter parameter in phylogenetic workflow
[x] Clean up exclude list from https://github.com/nextstrain/lassa/pull/19/commits/2ea141f58b093ae0441a042e973251fe413764c2