glad to hear it Bruce On Wed, 13 Jun 2018, Erik O'Hanlon wrote:
> External Email - Use Caution > > Sorry Bruce, > > > Yep Thanks. I didn't spot that label just the 216. Worked perfectly. > > > Thanks again > > > Erik > > ________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Bruce Fischl > <fis...@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 Caution >> >> Hi 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 > > [cid:rcsi-crest-signature_f581c185-1d03-45c8-a786-23d8ece3d391.png] > > RCSI Psychiatry > Royal College of Surgeons in Ireland > Beaumont Road, Beaumont D9 Ireland > T: 8093740 > E: erikohan...@rcsi.ie W: www.rcsi.com<http://www.rcsi.com/> > > > Transforming Healthcare Education, Research and Service: RCSI Strategic Plan > 2018-2022<http://www.rcsi.ie/strategy2018> > > > RCSI LEADING THE WORLD TO BETTER HEALTH > > [cid:both3_b9da8717-e91f-4ea7-8729-dc2c4d0a7a5f.png] > > >> ________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Bruce Fischl >> <fis...@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 Caution >>> >>> Hi 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 >>> >>> [cid:rcsi-crest-signature_f581c185-1d03-45c8-a786-23d8ece3d391.png] >>> >>> RCSI Psychiatry >>> Royal College of Surgeons in Ireland >>> Beaumont Road, Beaumont D9 Ireland >>> T: 8093740 >>> E: erikohan...@rcsi.ie W: www.rcsi.com<http://www.rcsi.com/> >>> >>> >>> Transforming Healthcare Education, Research and Service: RCSI Strategic >>> Plan 2018-2022<http://www.rcsi.ie/strategy2018> >>> >>> >>> RCSI LEADING THE WORLD TO BETTER HEALTH >>> >>> [cid:both3_b9da8717-e91f-4ea7-8729-dc2c4d0a7a5f.png] >>> >>> >> _______________________________________________ >> Freesurfer mailing list >> 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. >> >> >> Erik O'Hanlon >> Postdoctoral researcher >> >> [cid:rcsi-crest-signature_f581c185-1d03-45c8-a786-23d8ece3d391.png] >> >> RCSI Psychiatry >> Royal College of Surgeons in Ireland >> Beaumont Road, Beaumont D9 Ireland >> T: 8093740 >> E: erikohan...@rcsi.ie W: www.rcsi.com<http://www.rcsi.com/> >> >> >> Transforming Healthcare Education, Research and Service: RCSI Strategic Plan >> 2018-2022<http://www.rcsi.ie/strategy2018> >> >> >> RCSI LEADING THE WORLD TO BETTER HEALTH >> >> [cid:both3_b9da8717-e91f-4ea7-8729-dc2c4d0a7a5f.png] >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
