glad to hear it Bruce On Wed, 13 Jun 2018, Erik O'Hanlon wrote:
External Email - Use CautionSorry Bruce,
Yep Thanks. I didn't spot that label just the 216. Worked perfectly.
Thanks again
Erik
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu Sent: 12 June 2018 19:04:32 To: Freesurfer support list Subject: Re: [Freesurfer] Extract the entorhinal cortex as a mask
I think you can use 1006 (left) and 2006 (right)
cheers Bruce On Tue, 12 Jun 2018, Erik O'Hanlon wrote:
External Email - Use CautionHi Bruce,
Thanks. So if I use the following command
mri_extract_Label aparc+aseg.mgz 216 EC.mgz
would that give me both L and right EC extracted? is there any way to get the left and right separately?
Thanks so much for the help
cheers
Erik
Erik O'Hanlon Postdoctoral researcher
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From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu Sent: 12 June 2018 14:56:41 To: Freesurfer support list Subject: Re: [Freesurfer] Extract the entorhinal cortex as a mask
Hi Erik
yes, you can apply mri_extract_label to the aparc+aseg.mgz to extract EC as a volume mask
cheers Bruce On Tue, 12 Jun 2018, Erik O'Hanlon wrote:
External Email - Use CautionHi FS experts ,
I'd like to make masks for the entorhinal cortex to use for tractography. Can you advise what FS tool should be used? I've used the mri_extract_label for my hippocampal masks but not sure what files to use to extract EC ? I'm sure it's straightforward
Thanks for any advice
Best regards
Erik
Erik O'Hanlon Postdoctoral researcher
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RCSI Psychiatry Royal College of Surgeons in Ireland Beaumont Road, Beaumont D9 Ireland T: 8093740 E: erikohanlon@rcsi.ie W: www.rcsi.comhttp://www.rcsi.com/
Transforming Healthcare Education, Research and Service: RCSI Strategic Plan 2018-2022http://www.rcsi.ie/strategy2018
RCSI LEADING THE WORLD TO BETTER HEALTH
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Erik O'Hanlon Postdoctoral researcher
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RCSI Psychiatry Royal College of Surgeons in Ireland Beaumont Road, Beaumont D9 Ireland T: 8093740 E: erikohanlon@rcsi.ie W: www.rcsi.comhttp://www.rcsi.com/
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RCSI LEADING THE WORLD TO BETTER HEALTH
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