diff --git a/docs/changes/newsfragments/340.bugfix b/docs/changes/newsfragments/340.bugfix
new file mode 100644
index 000000000..85e6f5c87
--- /dev/null
+++ b/docs/changes/newsfragments/340.bugfix
@@ -0,0 +1 @@
+Remove extra dimension from masks warped via ANTs by `Synchon Mandal`_
diff --git a/junifer/markers/parcel_aggregation.py b/junifer/markers/parcel_aggregation.py
index a24f2eef7..934a76bf5 100644
--- a/junifer/markers/parcel_aggregation.py
+++ b/junifer/markers/parcel_aggregation.py
@@ -208,7 +208,7 @@ class ParcelAggregation(BaseMarker):
             )
             # Get "logical and" version of parcellation and mask
             parcellation_bin = math_img(
-                "np.logical_and(img, mask)",
+                "np.logical_and(img, np.squeeze(mask))",
                 img=parcellation_bin,
                 mask=mask_img,
             )