add decoy filter

MannLabs · Sep 15, 2024 · 7a1e03e · 7a1e03e
1 parent 7fa7f28
commit 7a1e03e
Showing 1 changed file with 3 additions and 1 deletion.
diff --git a/alphadia/workflow/optimization.py b/alphadia/workflow/optimization.py
@@ -848,7 +848,9 @@ def update_with_fdr(self, precursor_df: pd.DataFrame):
             The precursor dataframe for the current batch of the optimization lock (from workflow.perform_fdr).
         """
 
-        self._precursor_at_fdr_count = np.sum(precursor_df["qval"] < 0.01)
+        self._precursor_at_fdr_count = np.sum(
+            (precursor_df["qval"] < 0.01) & (precursor_df["decoy"] == 0)
+        )
         self.has_target_num_precursors = (
             self._precursor_at_fdr_count >= self._precursor_target_count
         )