Hello,
Sorry for my late reply but I just tried these commands today. In fact, I don't have mris_left_right_register on Freesurfer 5.3 so I used this one : https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev_binaries/ and it seems to work.
Concerning mris_apply_reg, I am not sure how to use it. 1) My custom label is on fsaverage. I use the command: mri_label2label --srcsubject fsaverage --srclabel fsaverage/lh.manual_label.label --trgsubject IdSubject --trglabel IdSubject/lh.manual_label.label --hemi lh --regmethod surface to come back to the native space
2) mris_left_right_register enables me to have symetric hemispheres on the subject
3) Then I want to correspond my label (defined on left hemisphere) to the right hemisphere. I specify IdSubject/lh.manual_label.label for the --src-label flag but the output flag, is " --streg lh.sphere rh.sphere.left_right" correct ? I can choose between "--trg trgvalfile" and "--streg srcreg1 trgreg1 " but I don't know what is the difference and how to use it.
(To be sure, do I need to use one on these following flags: --jac : use jacobian correction --no-rev : do not do reverse mapping --randn : replace input with WGN --ones : replace input with ones ?)
Alexandre
2016-05-04 21:07 GMT+02:00 Douglas N Greve greve@nmr.mgh.harvard.edu:
ive put a copy here
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mris_apply_reg
On 05/03/2016 04:21 AM, Alexandre Routier wrote:
Hello Douglas,
Unfortunately, I didn't find the command mris_apply_reg in FreeSurfer 5.3. Is there anything to do to solve this problem ?
Alex
2016-04-28 18:15 GMT+02:00 Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>:
You can use mris_left_right_register, then use mris_apply_reg withthe
--src-label option. I can't remember whether these are in 5.3 (or whether 5.3 has the --src-label), so let me know if you need updates On 04/28/2016 09:06 AM, Alexandre Routier wrote: > Hello everyone, > > We used tksurfer to draw a specific region on the left hemisphereof
> fsaverage subject and we would like to automatically register the > label from the left hemisphere to the right hemisphere. > > Since FreeSurfer provides tools to compute a symmetric fsaverage > (https://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi), I was wondering if > there was any command to have the manually drawn label on the left > hemisphere to the right hemisphere. > > Thanks in advance for your help. > Alexandre > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://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 <mailto:Freesurfer@nmr.mgh.harvard.edu>
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