you can try adding -reassign, but the label must be in the same coords as
the anatomical for this to work. You'll know right away if it did or not
though
cheers
Bruce
On Wed, 10 Jul 2013, 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 <fis...@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
Klinik für Psychiatrie und Psychotherapie
Campus Charité Mitte
Charitéplatz 1
10117 Berlin
http://www.mind-and-brain.de/
_______________________________________________
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.
