Draw ROI

Draw ROIs is implemented as automatically drawing spheres or cubes with ROI coordinates and a header reference 3D image. The ROI coordinages and labels are sorted in a *.csv table for output indexing purpose, while the header reference image is used to define the output image properties such as bounding box, originator, orientation, inclusive mask, and voxel size.

  • type: draw roi as sphere or cube

  • unit: unit of input radius

  • radius: radius of sphere or 1/2 edge length for cubic

  • input type:
    • manual: input coordinates seperated by ‘;’


    • file: input a csv file with 3 columns for x,y,z (the first line should be ‘x’, ‘y’ and ‘z’)
  • mask roi afterwards: mask generated roi using input mask

  • output to one roi file: instead of output one file for each roi, BRANT will generate one roi file with each roi labeled by number

  • ref&mask: reference and mask file. for extracting information of origin, voxel size, bounding box, etc..

  • out dir: directory for output

  • Buttons:
    • S: Save parameters of the current panel to a *.mat file. The *.mat can be further loaded for the panel or be used in a script processing.
    • L: Load parameters from *.mat for the current panel.
    • ?: Help information.