Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-12-27 Thread Neuro Lists
Hi again, I just wanted to revisit this thread to see if I had misunderstood something or had done something incorrectly? The commands I used for bert were as follows: cd ${SUBJECTS_DIR}/bert cd surf mris_left_right_register lh.sphere rh.sphere lh.sphere.left_right rh.sphere.left_right cd

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-17 Thread Neuro Lists
Hi, The one I tested with in the last couple of messages is just the standard bert subject after having done: cd ${SUBJECTS_DIR}/bert cd surf mris_left_right_register lh.sphere rh.sphere lh.sphere.left_right rh.sphere.left_right And then running: cd ../label mris_apply_reg --src-label

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-17 Thread Douglas N Greve
Is this fsaverage or one of your own subjects? On 10/17/2017 02:18 PM, Neuro Lists wrote: > Hi Doug, > Thanks a lot for looking into it. Unfortunately it's still not working > though. > > See here: > https://imgur.com/a/lxXUH > > Thanks again! > > On Mon, Oct 16, 2017 at 12:31 PM, Douglas

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-17 Thread Neuro Lists
Hi Doug, Thanks a lot for looking into it. Unfortunately it's still not working though. See here: https://imgur.com/a/lxXUH Thanks again! On Mon, Oct 16, 2017 at 12:31 PM, Douglas Greve wrote: > Sorry, try this > > mris_apply_reg --src-label lh.BA45.label --trg

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-16 Thread Douglas Greve
Sorry, try this mris_apply_reg --src-label lh.BA45.label --trg lh_flip.BA45.label --streg ../surf/lh.sphere.left_right ../surf/rh.sphere.left_right On 10/13/17 2:58 PM, Neuro Lists wrote: Hi all, I was just wondering if there was any further insight into what I might be doing wrong on

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-13 Thread Neuro Lists
Hi all, I was just wondering if there was any further insight into what I might be doing wrong on this. Thanks again! On Thu, Oct 12, 2017 at 10:30 AM, Neuro Lists wrote: > Hi Doug and Bruce, > I forgot to mention that I had tried that as well but without

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-12 Thread Neuro Lists
Hi Doug and Bruce, I forgot to mention that I had tried that as well but without success. As a sanity check, tried flipping a label from the 'bert' subject and it still comes out wrong. I've uploaded a screen shot of the result: https://imgur.com/a/J6Phx Thank you for any input you might have!

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-11 Thread Douglas Greve
Try mris_apply_reg --src-label your.lh.label --trg your.rh.label -streg lh.sphere.left_right rh.sphere On 10/11/17 5:43 PM, Neuro Lists wrote: Hi all, I've searched the lists extensively and have not been able to resolve my problem. I'd greatly appreciated any help. I have run the

Re: [Freesurfer] Problem flipping a label into other hemisphere

2017-10-11 Thread Bruce Fischl
I think mri_label2label with the sphere from the left right registration should work Bruce > On Oct 11, 2017, at 5:43 PM, Neuro Lists > wrote: > > Hi all, > I've searched the lists extensively and have not been able to resolve my > problem. I'd greatly

[Freesurfer] Problem flipping a label into other hemisphere

2017-10-11 Thread Neuro Lists
Hi all, I've searched the lists extensively and have not been able to resolve my problem. I'd greatly appreciated any help. I have run the recon-all pipeline on a number of subjects, made the appropriate fixes and am happy with the surfaces. For each subject, I have a number of ROIs that are