diff --git a/workflow/scripts/count/merge_replicates_barcode_counts.py b/workflow/scripts/count/merge_replicates_barcode_counts.py
index e5a8b7c..ff71276 100644
--- a/workflow/scripts/count/merge_replicates_barcode_counts.py
+++ b/workflow/scripts/count/merge_replicates_barcode_counts.py
@@ -21,14 +21,14 @@
 )
 @click.option(
     "--output",
-    "output_threshold_file",
+    "output_file",
     required=True,
     type=click.Path(writable=True),
     help="Output file.",
 )
 @click.option(
     "--output-threshold",
-    "output_file",
+    "output_threshold_file",
     required=True,
     type=click.Path(writable=True),
     help="Output file.",