diff --git a/psm_utils/psm_list.py b/psm_utils/psm_list.py index c38ffdf..90d6f71 100644 --- a/psm_utils/psm_list.py +++ b/psm_utils/psm_list.py @@ -242,6 +242,8 @@ def calculate_qvalues(self, reverse: bool = True, **kwargs) -> None: self, key="score", is_decoy="is_decoy", + formula=1, + correction=1, remove_decoy=False, reverse=reverse, full_output=True,