Merge pull request #1167 from griffithlab/aggregate_inclusion_count_l…

…imit_bugfix Fix bug with pVACsplice aggregate_inclusion_count_limit
griffithlab · Dec 19, 2024 · df71ca9 · df71ca9
2 parents 6137d1f + 48791a3
commit df71ca9
Showing 1 changed file with 2 additions and 0 deletions.
diff --git a/pvactools/lib/aggregate_all_epitopes.py b/pvactools/lib/aggregate_all_epitopes.py
@@ -1123,6 +1123,7 @@ def __init__(
         percentile_threshold=None,
         allele_specific_binding_thresholds=False,
         aggregate_inclusion_binding_threshold=5000,
+        aggregate_inclusion_count_limit=15,
         top_score_metric="median",
         trna_vaf=0.25,
         trna_cov=10,
@@ -1137,6 +1138,7 @@ def __init__(
             percentile_threshold=percentile_threshold,
             allele_specific_binding_thresholds=allele_specific_binding_thresholds,
             aggregate_inclusion_binding_threshold=aggregate_inclusion_binding_threshold,
+            aggregate_inclusion_count_limit=aggregate_inclusion_count_limit,
             top_score_metric=top_score_metric,
         )
         self.tumor_purity = tumor_purity