oh, if it's that few then yes, but that wasn't what it looked like in the image you sent On Fri, 28 Jun 2013, Jonathan Holt wrote:
Martin, this is longitudinal processing, would you recommend a more aggressive or less aggressive skull strip?
Bruce,
I've not seen this issue on more than a handful of subjects. They're ALS, but I dont think that is the cause behind this. I'm unfamiliar with bias fields, but it's more likely than pathology.
As for control points, there are no more than 5-7 voxels in that area over the span of 30 slices. Should I simply add to those? On Jun 28, 2013, at 11:19 AM, Martin Reuter wrote:
Hi Jonathan,is this in cross sectional processing or in longitudinal?
One thing I notice is significant motion artifacts (ringing), which seem to lead to underestimation of WM, also you could fine tune the skull strip.
Best, Martin
On Jun 28, 2013, at 10:19 AM, Jonathan Holt whatsdac@umich.edu wrote:
Hi all,I'm having a bit of trouble with one particular subject for which we brains for 4-5 different time points. The pial surface is consistently misplaced in the same area, see attached main/aux volume images. I'm hesitant to manually replace the white matter myself as I fear it wouldn't be as accurate. Suggestions on other methods to fix this?
The problem is always in the LH temporal right around the lateral inferior ventricle and the fusiform and other subcortical structures.
<Screen Shot 2013-06-28 at 10.18.59 AM.png><Screen Shot 2013-06-28 at 10.14.50 AM.png>_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dr. Martin Reuter Assistant in Neuroscience - Massachusetts General Hospital Instructor in Neurology - Harvard Medical School MGH / HMS / MIT
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