Replacing slicereg by deep learning registration

Fixes #35
shimming-toolbox · Jan 17, 2024 · 61f67c3 · 61f67c3
1 parent 5055081
commit 61f67c3
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/data_processing.ipynb b/data_processing.ipynb
@@ -260,7 +260,7 @@
     "    for shim_mode in shim_modes:\n",
     "        # Don't do it for CoV_T2starw\n",
     "        if shim_mode != 'CoV':\n",
-    "            !sct_register_multimodal -i {subject}_acq-{shim_mode}_T2starw.nii.gz -d {subject}_acq-CoV_T2starw_crop.nii.gz -dseg {subject}_acq-CoV_T2starw_crop_seg.nii.gz -param step=1,type=im,algo=slicereg,metric=CC -qc {path_qc}"
+    "            !sct_register_multimodal -i {subject}_acq-{shim_mode}_T2starw.nii.gz -d {subject}_acq-CoV_T2starw_crop.nii.gz -dseg {subject}_acq-CoV_T2starw_crop_seg.nii.gz -param step=1,type=im,algo=dl -qc {path_qc}"
    ]
   },
   {