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 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.
