ROI Totaliser

The Totaliser facilitates calculation of total ROI areas and volumes; start it from the Calc menu of the ROI Toolkit: calc_totals

During the calculation of totals, you are prevented from changing the ROIs in the loaded image. However, you may load a new image and continue working with that if you wish.

Note: the total will NOT include a contribution from deleted ROIs. Deleted ROIs are not included in the totals.

After the totals are computed, a window will appear showing the total number of ROIs, the number of volumes of interest (VOIs, which are groups of ROIs that overlap in 3-D), the total area and volume, the total perimeter and the total surface area (which is the total perimeter multiplied by the slice separation), and giving you the opportunity to write the totals to a report on disk.

totals

You can:

  • Write to a text file report. A File chooser will appear, for you to choose a log file name. The default file extension for log files is ".log". If the chosen file already exists, an entry will be appended to the log file.
  • Write to a PDF file report. A File chooser will appear, for you to choose a PDF file name. If the chosen file already exists, an entry will be appended to the PDF file.
  • Send a PDF report to a DICOM server. The DICOM server to which it will be sent must already have been set up, and is the current server selected in the DICOM Query/Retrieve tool. See these instructions for how to set up the connection to remote DICOM servers.
  • Save PDF and Send to DICOM. Both save to disk and send to a DICOM server.

If Jim detects that you have created ROIs that have different colours or annotations, the the totals report on disk (either in text or PDF format) will (in addition to the totals for all ROIs) also have individual totals for ROIs in the separate colour categories or annotation categories, or colour/annotation categories (if ROIs have different colours and annotations).

Also in the report is a table showing, for each VOI:

  • The VOI volume.
  • The first and last image slices in which the VOI appears.
  • The mean intensity and standard deviation of intensity in the VOI.
  • The minimum and maximum intensity in the VOI.
  • The median intensity in the VOI.