ROI MappingΒΆ

When visualizing ROIs from an atlas or clusters from a user-defined 3D volume (e.g., clusters with significant difference between sample means), we can use the current function to extract and shade the surface of each number-tagged ROI/cluster in random or user defined colors. The ROIs/clusters of the input 3D image should be tagged with positive-integers. With an additional input of a reference *.csv table containing number-label pairs (as described in Utilities -> DICOM Convert), we can further parse the labels of each shaded ROI/cluster and present them in a legend.

  • alpha: degree of transparency.

  • display: mode of display.

  • display surface: show surface.

  • surface: surface file.

  • display legend: display legend.

  • roi file: extract mean intensity in the roi tagged by numbers.

  • roi info*: optional. two columns of information for each labeled cluster in a *.csv file. For example:

  • roi vals: select which roi to display.

  • color: optional. use random color or input color file.

  • color file: the input color could be (ROI tag, R, G, B):

  • output color: output color of current image.

  • out dir: output directory for saving results.

  • 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.