Topological correction

Forums Forums Cortical Surface Extraction Topological correction

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    • #194
      christ21
      Participant

      When I start the Cortical Surface Extraction Sequence using the GUI, the process always stops at topology correction during fixing topological defects of size 21, no matter which nii-file I use, and the Programme has to be closed. In the BrainSuite Log it only says ‘Too many edges in table’.
      I use BrainSuite 15c with Windows 7.
      Does anybody know what the reason for this is?
      Thank you very much for your help!

    • #195
      David Shattuck
      Keymaster

      What is the resolution of the images you are using?

      Usually when this happens it is because the image has not been segmented properly by the preceding steps.

      -David Shattuck

      • #244
        jthompson
        Participant

        Hello David,

        I am having the same issue. My image resolution is:
        Dimensions: 512x512x214
        Voxel: 0.5×0.5×1 (mm)

        Using T1.

        What parameters should I adjust (at which stage) to obtain better results?

        Thanks!!
        John

    • #228

      I have the same problem – running 15c in Windows 7.

    • #245
      yeunkim
      Participant

      Could you try loading up the *pvc.label.nii.gz (label volume of tissue types) file superimposed over your brain image? (Load either the unprocessed brain image or the bias field corrected (*bfc.nii.gz image) as Volume and load *pvc.label.nii.gz file as Label). From here, you can visually check the quality of the tissue segmentation. As you move your cursor around in the images, the bottom bar of your window will tell you which tissue type it has been labeled.

      If your image has been poorly segmented, you may want to try editing your brain mask (Skull Stripping) or bias field correction (Nonuniformity Correction) parameters. I hope this helps!

      Best,
      Yeun

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