Update peak calling method for chip assay

alsmith151 · Apr 1, 2024 · 707a501 · 707a501
1 parent 5877c56
commit 707a501
Showing 1 changed file with 4 additions and 1 deletion.
diff --git a/tests/test_pipelines.py b/tests/test_pipelines.py
@@ -325,8 +325,11 @@ def config_yaml_for_testing(config_yaml, assay):
 
     if assay == "chip":
         config["pileup_method"] = ["deeptools", "homer"]
-        config['peak_calling_method'] = ["lanceotron", "macs", "homer", "seacr"]
+        config['peak_calling_method'] = ["lanceotron", "macs", "homer"]
         config["library_complexity"] = False
+    elif assay == "chip-rx":
+        config["call_peaks"] = True
+        config["peak_calling_method"] = ["seacr"]
 
     with open(config_yaml, "w") as f:
         yaml.dump(config, f)