Re: [Freesurfer] talairach and MNI305 Atlas
Mark, you can run recon-all -s subject -motioncor -talairach And it will run it upto the creation of the talairach matrix. If you only have one run, then you don't need -motioncor doug On 07/15/2013 12:35 PM, Mark Plantz wrote: > Hello freesurfers, > > I am currently attempting to create a normalized .mgz file from an > input brain using mri_ca_normalize. Ultimately, I will use the > norm.mgz file to create a .gca atlas for infant MRI's. > >Currently, I have three of the four required arguments. I am > lacking the talairach.lta file. In order to obtain this file, I must > run recon-all. However, I do not wish to run recon-all until I have > obtained the necessary .gca atlas described above. > >Is there possibly some sort of alternative iterative method to > create the talairach transform? If so, does it require a different > atlas than the MNI305 atlas? > > Thanks for the help! > > -Mark > > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ ___ 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.
Re: [Freesurfer] talairach and MNI305 Atlas
Hi Mark do you have a segmentaton for the brain? Bruce On Mon, 15 Jul 2013, Mark Plantz wrote: Hello freesurfers, I am currently attempting to create a normalized .mgz file from an input brain using mri_ca_normalize. Ultimately, I will use the norm.mgz file to create a .gca atlas for infant MRI's. Currently, I have three of the four required arguments. I am lacking the talairach.lta file. In order to obtain this file, I must run recon-all. However, I do not wish to run recon-all until I have obtained the necessary .gca atlas described above. Is there possibly some sort of alternative iterative method to create the talairach transform? If so, does it require a different atlas than the MNI305 atlas? Thanks for the help! -Mark ___ 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.
[Freesurfer] talairach and MNI305 Atlas
Hello freesurfers, I am currently attempting to create a normalized .mgz file from an input brain using mri_ca_normalize. Ultimately, I will use the norm.mgz file to create a .gca atlas for infant MRI's. Currently, I have three of the four required arguments. I am lacking the talairach.lta file. In order to obtain this file, I must run recon-all. However, I do not wish to run recon-all until I have obtained the necessary .gca atlas described above. Is there possibly some sort of alternative iterative method to create the talairach transform? If so, does it require a different atlas than the MNI305 atlas? Thanks for the help! -Mark ___ 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.
