Hello Bruce, Thanks for the suggestion! I've never used control points to bring intensities down, but I suppose they do normalize the selected voxels to an intensity value of 110.
There are also a few voxels of what to my eyes appear to be tentorium that are labeled as white matter. Can you think any good way to exclude said voxels? I will also take you up on your offer and upload the subject directory. Thanks again for the help! Doug Doug Merkitch Neurological Sciences Rush University Medical Center Phone: (312) 563-3853<tel:%28312%29%20563-3853> Fax: (312) 563-4660<tel:%28312%29%20563-4660> Email: douglas_merki...@rush.edu<mailto:douglas_merki...@rush.edu> On Jan 6, 2015, at 7:39 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu<mailto:fis...@nmr.mgh.harvard.edu>> wrote: Hi Anthony and Doug have you tried control points? If you upload a subject dir I'll take a look cheers Bruce On Mon, 5 Jan 2015, Anthony Dick wrote: We have the same problem using the same coil (GE 750; mainly occipital pole), so any suggestions for how to correct this would be very helpful. Thanks! Anthony On 1/5/15, 7:05 PM, Douglas Merkitch wrote: Hello Freesurfer experts, We have T1 data from a 3T GE 32-channel head coil that exhibits areas of hyperintense white matter. Specifically there are areas of the wm.mgz on the periphery with values ranging from 117-121, which lead to overextending/overestimation of the wm.mgz. 1) Can anyone suggest specific processing options or flags to help correct for peripheral hyperintense white matter? 2) Can anyone suggest methods of correcting for local overestimation of white matter on the periphery? Your help is greatly appreciated! Doug Doug Merkitch Neurological Sciences Rush University Medical Center _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mai l contains patient information, please contact the Partners Compliance HelpLin e at http://www.partners.org/complianceline . If the e-mail was sent to you in er ror but does not contain patient information, please contact the sender and prop erly dispose of the e-mail. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
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