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Add open data model for USA #152

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Merged
huddlej merged 2 commits into from
Oct 24, 2025
Merged

Add open data model for USA #152

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a1f1ac1
Add open data model for USA
huddlej Oct 23, 2025
318fea8
Exclude "USA" from locations in USA models
huddlej Oct 23, 2025
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6 changes: 6 additions & 0 deletions config/config.yaml
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Expand Up @@ -44,6 +44,12 @@ prepare_data:
excluded_locations: "defaults/global_excluded_locations.txt"
clade_min_seq: 500
clade_min_seq_days: 150
usa:
included_days: 150
location_min_seq: 100
location_min_seq_days: 100
force_include_clades: "hub/included_clades.tsv"
excluded_locations: "defaults/usa_excluded_locations.txt"
pango_lineages:
global:
included_days: 150
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4 changes: 2 additions & 2 deletions config/variant_hub.yaml
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Expand Up @@ -8,7 +8,7 @@ hub_team_name: blab
# Define model parameters indexed by model abbreviations to use for hub
# submission.
hub_models:
gisaid_hier_mlr:
data_provenance: gisaid
open_hier_mlr:
data_provenance: open
variant_classification: nextstrain_clades
geo_resolution: usa
1 change: 1 addition & 0 deletions defaults/usa_excluded_locations.txt
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@@ -1 +1,2 @@
Washington DC
USA
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