To define the contiguous sub-regions (sampling volume) features, few parameters of the script should be adjusted to match your analysis needs. These parameters are located in the code area labeled as USER SETTING.

1. Set the Z planes range.
   FIRST_PLANE defines the lower Z plane of the sub-regions ROI.
   LAST_PLANE defines the higher Z plane of the sub-regions ROI.
   The values of -1 set the Z planes range equal to the whole volume depth (total number of Z Planes available).
   
2. COMPUTE_MAIN_BOX = True enables the creation of an additional ROI having the same sizes of the total subregions ROI size.
   
3. NUM_BOX_LENGHT defines the number of sub-regions along the main axis (the longest one). NUM_BOX_WIDTH defines the number of sub-regions along the minor axis (the shortest one).
   
   Note: Set the number of sub-regions accordingly to the total size of the reference ROI. Don’t create boxes too small.
   Examples:
   NUM_BOX_LENGHT = 10
   NUM_BOX_WIDTH = 1
   
   NUM_BOX_LENGHT = 10
   NUM_BOX_WIDTH = 2
   
4. SIZE_IN_VOXELS defines if the size of the Sub-Volume is expressed in metric unit (True) or it is calculated from the reference ROI size (False).
   
5. SIZE_BOX_HOR and SIZE_BOX_VER defines the Sub-Volume XY size in microns. The sizes are referred to a single box.
   SIZE_IN_VOXELS must be True to create the box in microns.
   Note: NUM_BOX_LENGHT and NUM_BOX_WIDTH are also involved in the metric Sub- Volume creation.
   Examples:
   SIZE_IN_VOXELS = True
NUM_BOX_LENGHT = 1
NUM_BOX_WIDTH = 1
SIZE_BOX_HOR = 10 (microns)
SIZE_BOX_VER = 30 (microns)

SIZE_IN_VOXELS = True
NUM_BOX_LENGHT = 3
NUM_BOX_WIDTH = 2
SIZE_BOX_HOR = 5 (microns)
SIZE_BOX_VER = 10 (microns)