Change default probability threshold for segmentation from 0.4 to 0.3

zellerlab · Aug 23, 2021 · 992f682 · 992f682
1 parent 4303538
commit 992f682
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/gecco/cli/commands/run.py b/gecco/cli/commands/run.py
@@ -106,7 +106,7 @@ def _check(self) -> typing.Optional[int]:
                 optional=True,
             )
             if self.args["--threshold"] is None:
-                self.threshold = 0.4 if self.args["--postproc"] == "gecco" else 0.6
+                self.threshold = 0.3 if self.args["--postproc"] == "gecco" else 0.6
             else:
                 self.threshold = self._check_flag("--threshold", float, lambda x: 0 <= x <= 1, hint="number between 0 and 1")
             self.jobs = self._check_flag("--jobs", int, lambda x: x >= 0, hint="positive or null integer")

diff --git a/gecco/refine.py b/gecco/refine.py
@@ -70,7 +70,7 @@ class ClusterRefiner:
 
     def __init__(
         self,
-        threshold: float = 0.4,
+        threshold: float = 0.3,
         criterion: str = "gecco",
         n_cds: int = 5,
         n_biopfams: int = 5,