volSegment

Segments volumetric file from a simple threshold which can be set automatically from the otsu estimation.

Usage: volSegment [input] [output]

Allowed options are :

-h [ --help ]                  display this message
-i [ --input ] arg             volumetric input file (.vol, .pgm, .pgm3d, 
                               .longvol) 
-o [ --output ] arg            volumetric output file (.vol, .pgm, .pgm3d, 
                               .longvol) 
--labelBackground              option to define a label to regions associated
                               to object background. 
-m [ --thresholdMin ] arg (=0) min threshold (if not given the max threshold 
                               is computed with Otsu algorithm).
-M [ --thresholdMax ] arg      max threshold (default 255)

Example:

You can test the segmentation in the lobster volume file:

$ volSegment -i ${DGtal}/examples/samples/lobster.vol  -o segmentation.vol  -m 70 -M 255

You will obtain a volumetric file representing for each voxel a label associated to a connected component. You can display this segmentation results by extracting it in SDP format with the vol2sdp tool (with option -e to export also the image labels):

$ vol2sdp -i segmentation.vol -o segmentation.sdp  -e -m 1 -M 255

and display them with 3DSDPViewer :

$ 3dSDPViewer -i segmentation.sdp  --importColorLabels

You should obtain such a result:

Segmentation result displayed with colors representing the segmentation labels.

See also

volSegment.cpp