ok thanks Dr. Fischl. I will use tksurfer in the meantime.
best wishes
Trisanna
-- Ph.D. Candidate McGill University Integrated Program in Neuroscience Psychology
On Wed, Apr 27, 2016 at 8:27 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
yes, I think that's true, although editing labels on the surface is on our to-do list I believe On Tue, 26 Apr 2016, Trisanna Sprung-Much wrote:
thanks Dr. Fischl - it seems to match well so I will continue to use this
method. It would be great if Ruopeng could eventually edit Freesurfer to allow for thresholding .labels too.
On another note, is there a way to edit labels in Freeview in a similar manner to doing so in tksurfer? From what I can tell, one can only edit volume segmentations in Freeview.
best
Trisanna
-- Ph.D. CandidateMcGill University Integrated Program in Neuroscience Psychology
On Mon, Apr 25, 2016 at 8:43 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu
wrote: yes, that sounds right. Does it look correct? That is, are areas 1/4 etc.. in the central sulcus and such? On Mon, 25 Apr 2016, Trisanna Sprung-Much wrote:
Not a problem, Dr. Fischl! In the meantime, could you please confirm that I am opening up a cytoarchitectonic probability map I have as .mnc correctly? I basically change it to a surface overlay.mgz using mri_vol2surf and then open it as an overlay with a surface in Freeview. I can then change the thresholds using "configure overlay". best Trisanna -- Ph.D. CandidateMcGill University Integrated Program in Neuroscience Psychology On Mon, Apr 25, 2016 at 6:53 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote: Hi Trisanna yes, but Ruopeng is on vacation to it will be a while Bruce On Mon, 25 Apr 2016, Trisanna Sprung-Much wrote: Hi there With regards to this email from March, I cannot seem to be able to change thresholds of .labels in Freeview. Could this be added as an option? best wishes Trisanna -- Ph.D. CandidateMcGill University Integrated Program in Neuroscience Psychology On Sun, Mar 13, 2016 at 1:45 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote: Hi Trisanna 1. the .thresh labels have been thresholded with a p-value threshold that is "best" on our training set of manually/architectonically defined labels. 2. Hmmm, not sure, but we have stopped development on tksurfer. Can you try this on freeview? I can't remember if freeview allows changing thresholds in labels, but if not Ruopeng can add it to his list of feature requests cheers Bruce On Sat, 12 Mar 2016, Trisanna Sprung-Much wrote: Hi there I have two questions regarding using the labels with tksurfer: 1. What exactly has been done to change the .label (e.g. lh BA44.label) to .thresh.label (e.g. lh BA44.thresh.label? 2. The instructions on this page https://surfer.nmr.mgh.harvard.edu/fswiki/BrodmannAreaMaps to overlay the labels and set the Min and Max do not seem to work for me - I cannot seem to alter the Min from 2 and the Max from 5. Any thoughts as to why? thanks very much! Trisanna -- Ph.D. CandidateMcGill University Integrated Program in Neuroscience Psychology _______________________________________________ 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 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 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 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.