volume size mismatching

Forums Forums Cortical Surface Extraction volume size mismatching

This topic contains 3 replies, has 2 voices, and was last updated by  David Shattuck 4 years, 3 months ago.

  • Author
    Posts
  • #138

    abujamea
    Participant

    Hi everybody I am having a problem with size of the cortical surface results that it show smaller size than background MRI images. I tried to use different dicom to nifti converter but the result is the same. I dont know if any body had similar problem before, I appreciate your help and support.

    It look like this [url=http://postimg.org/image/mlgfz9ak3/][img]http://s21.postimg.org/mlgfz9ak3/Screen_Shot_2015_12_17_at_8_53_51_AM.jpg[/img][/url]

    http://postimg.org/image/mlgfz9ak3/

  • #139

    David Shattuck
    Keymaster

    Hi Abujamea –

    It looks like a processing error happened earlier in the cortical surface extraction routine. Without seeing all of your output, my best guess is that the skull-stripping step didn’t remove a sufficient amount of the scalp/neck, which then resulted in a misclassification of GM during the tissue classification step.

    Can you step through the processing steps for cortical extraction and see where if it failed there?

    thanks,
    David Shattuck

    • #142

      abujamea
      Participant

      Thank you David you are right, I did skull-stripping using FSL and then use Brainsuite for the rest of processing and it works perfect.

    • #143

      David Shattuck
      Keymaster

      Hi Abujamea –

      Great — happy to hear that solved the problem.

      thanks,
      David

You must be logged in to reply to this topic.