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fix: expose cohort size parameters in diversity_stats #1290

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fix: expose cohort size parameters in diversity_stats #1290

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a03c94a
fix: expose cohort size parameters in diversity_stats
adilraza99 Apr 13, 2026
083df40
Merge branch 'master' into GH1288-diversity-stats-cohort-params
adilraza99 Apr 14, 2026
706d125
Merge branch 'master' into GH1288-diversity-stats-cohort-params
adilraza99 Apr 16, 2026
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6 changes: 5 additions & 1 deletion malariagen_data/anopheles.py
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Original file line number Diff line number Diff line change
Expand Up @@ -526,6 +526,8 @@ def diversity_stats(
cohorts: base_params.cohorts,
cohort_size: base_params.cohort_size,
region: base_params.regions,
min_cohort_size: Optional[base_params.min_cohort_size] = None,
max_cohort_size: Optional[base_params.max_cohort_size] = None,
site_mask: Optional[base_params.site_mask] = base_params.DEFAULT,
site_class: Optional[base_params.site_class] = None,
sample_query: Optional[base_params.sample_query] = None,
Expand All @@ -544,7 +546,7 @@ def diversity_stats(
sample_query=sample_query,
sample_query_options=sample_query_options,
cohort_size=cohort_size,
min_cohort_size=None,
min_cohort_size=min_cohort_size,
)

# Compute diversity stats for cohorts.
Expand All @@ -554,6 +556,8 @@ def diversity_stats(
cohort=(cohort_label, cohort_query),
cohort_size=cohort_size,
region=region,
min_cohort_size=min_cohort_size,
max_cohort_size=max_cohort_size,
site_mask=site_mask,
site_class=site_class,
sample_sets=sample_sets,
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