1. Open connectome workbench interface

To open the connectome workbench interface:

  1. open a new terminal
  2. type wb_view
  3. press enter

2. Load a surface file and a layer

To load a surface file:

  1. Click File > Open File…
  2. Nevigate to the directory where the templates are stored (for example: /cifs/diedrichsen/data/Atlas_templates/fs_LR_32)
  3. Choose a surface file, and click open (for example: fs_LR_32k.L.flat.surf.gii)
  4. Use the save method to load a layer file (: for example: fs_LR_32k.LR.sulcus.dscalar.nii )

3. Draw a new ROI

In the top bar:

  1. Within the “Mode” section, choose “Edit Borders”
  2. Within “Border Mode” section, choose “Draw”
  3. Within “Border Operation” section, choose “New”

Workbench GUI: create a new surface ROI

  1. With a pen toll, define the border of the new ROI

Define the border of the new ROI

4. Save the border file

To save the new border file:

  1. In the top bar, within the “Border Operation section”, click “Finish”
  2. Name the new border file (for example: newROIs.border), and add a name to the specific ROI you just created (for example: myROI.border)
  3. Save the border file by clicking “File > Save/Manage Files…”, and then checking the new border file in the Manage Data Files window.

Save a new border file

5. Convert the border file to a ROI

To make a ROI from the boarder file:

  1. Open a new terminal
  2. Use the ‘<-border-to-rois>’ command to convert the border file to a ROI.
wb_command -border-to-rois <surface> <border-file> <metric-out>

‘' is the full path to the surface the borders are drawn on; '' is the full path to the border file you want to convert; '' is the full path to the output ROI file.

Usage example:

wb_command -border-to-rois 
'/cifs/diedrichsen/data/Atlas_templates/fs_LR_32/fs_LR.32k.L.flat.surf.gii' 
'/cifs/diedrichsen/data/Atlas_templates /articulation.border' 
'/cifs/diedrichsen/data/Atlas_templates /articulation.shape.gii'