Hi Bianca, I'm a little confused. What do you mean you registered with SPM beforehand? If you're using FSFAST, then the registration is done as part of preproc-sess. The results for both sessions are on the surface, so there is no need to do anything to a label created from one session to show it on another session.
doug
On 07/10/2013 11:55 AM, Bianca van Kemenade wrote:
Hi Bruce,
Thank you for your reply. I coregistered the new data beforehand in SPM (to the structural of the old session). So I didn't do anything to the label. I displayed the structural with tksurfer-sess -c eccen -fthresh 0.5 -a rtopy.self.lh -s P2_BK (since I wanted to display my eccentricity data) and loaded the label just by clicking load --> label. Should I add -reassign in this tksurfer command, or is there a way to load the label with a command, to which I have to add -reassign?
Also, I'm not familiar with freeview, I tried starting it by typing 'freeview' but I get the error: freeview.bin: error while loading shared libraries libXss.so.1: cannot open shared object file: No such file or directory. It doesn't seem to depend on which directory I'm in.
Thanks, Bianca
On Wed, Jul 10, 2013 at 5:19 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu> wrote:
Hi Bianca how did you coregister the data? Did you map the label so that it is in the coords of the new session? If so, try specifying -reassign on the tksurfer command line. That will discard the vertex indices in the label (which refer to the first session surfaces) and reassign vertex numbers from the current subject. This will *only* work if the label is in the correct coordinate system. You can verify this by loading it in freeview on top of the anatomical from the new session cheers Bruce On Wed, 10 Jul 2013, Bianca van Kemenade wrote: Hi Freesurfers, I have some participants of whom I obtained retinotopic polar angle data in a previous session, and scanned eccentricity data in a later session. I used the polar angle data to define V1-3, and would like to display these labels on the eccentricity session to help me define V3A. However, when I load my old V1-3 labels onto the inflated brain based on the new session the labels look very strange. I attached a screenshot of what is supposed to be lh dorsal V1, as you can see it is scattered all over the cortex. When I load the .nii based on the label into MRIcron, the ROI looks fine. Data from the newer session were coregistered to the older session, so that can't be the problem. I looked around on the wiki and found the command mri_label2label that seemed useful. However, this command needs acces to the 'surf' folders of both sessions. Due to a computer crash I only have the labels of the previous session, not the 'surf' folder. Is there a way to display my old labels onto the new session without needing access to 'surf'? Thanks, Bianca 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.-- Bianca van Kemenade, MSc Doctoral Candidate, Berlin School of Mind and Brain
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