enh: add brainmask_thresh as a parameter

Author: oesteban

niworkflows/func/util.py

@@ -188,7 +188,10 @@ def init_bold_reference_wf(
 
 
 def init_enhance_and_skullstrip_bold_wf(
-    name="enhance_and_skullstrip_bold_wf", pre_mask=False, omp_nthreads=1
+    brainmask_thresh=0.5,
+    name="enhance_and_skullstrip_bold_wf",
+    omp_nthreads=1,
+    pre_mask=False,
 ):
     """
     Enhance and run brain extraction on a BOLD EPI image.
@@ -238,13 +241,16 @@ def init_enhance_and_skullstrip_bold_wf(
 
     Parameters
     ----------
+    brainmask_thresh: :obj:`float`
+        Lower threshold for the probabilistic brainmask to obtain
+        the final binary mask (default: 0.5).
     name : str
         Name of workflow (default: ``enhance_and_skullstrip_bold_wf``)
+    omp_nthreads : int
+        number of threads available to parallel nodes
     pre_mask : bool
         Indicates whether the ``pre_mask`` input will be set (and thus, step 1
         should be skipped).
-    omp_nthreads : int
-        number of threads available to parallel nodes
 
     Inputs
     ------
@@ -399,7 +405,7 @@ def init_enhance_and_skullstrip_bold_wf(
             ),
             name="map_brainmask",
         )
-        binarize_mask = pe.Node(Binarize(thresh_low=0.15), name="binarize_mask")
+        binarize_mask = pe.Node(Binarize(thresh_low=brainmask_thresh), name="binarize_mask")
 
         # fmt: off
         workflow.connect([