Hello!
I am attempting to create a DLPFC ROI, based on methods described in : Yendiki et al. (2010). Multi-site characterization of an fMRI working memory paradigm: Reliability ofactivation indices. Neuroimage. 53 (1), 119-131.
Those authors state they merged existing parcellation labels, and then made a "coronal cut at Talairach coordinate y=26." I have successfully merged the existing labels, but am having trouble figuring out a good way to do the cut. I have tried using the "Make closed path" and "Custom fill" options in tksurfer, but am having trouble getting those to make a clean cut right at y=26.
I'd appreciate any suggestions!
Thank you, Allison
Hi Allison - You can use bblabel for the cuts. (You'd have to map the label to fsaverage first, use bblabel, and then map back to the individual.)
Hope this helps, a.y
On Fri, 3 Jun 2011, Allison R. Kaup wrote:
Hello!
I am attempting to create a DLPFC ROI, based on methods described in : Yendiki et al. (2010). Multi-site characterization of an fMRI working memory paradigm: Reliability ofactivation indices. Neuroimage. 53 (1), 119-131.
Those authors state they merged existing parcellation labels, and then made a "coronal cut at Talairach coordinate y=26." I have successfully merged the existing labels, but am having trouble figuring out a good way to do the cut. I have tried using the "Make closed path" and "Custom fill" options in tksurfer, but am having trouble getting those to make a clean cut right at y=26.
I'd appreciate any suggestions!
Thank you, Allison _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi all,
I have created a DLPFC label in Freesurfer, and am now trying to figure out how to visualize that ROI in SUMA. We have already successfully converted the aparc+aseg to SUMA (using @SUMA_Make_Spec_FS). I am wondering if a similar process can be used on this label file. Or, if there is a better way to convert label files to SUMA format?
I put in the same question to the AFNI folk as well....
Thanks! Allison
On Fri, Jun 3, 2011 at 11:26 AM, Allison R. Kaup akaup@ucsd.edu wrote:
Hello!
I am attempting to create a DLPFC ROI, based on methods described in : Yendiki et al. (2010). Multi-site characterization of an fMRI working memory paradigm: Reliability ofactivation indices. Neuroimage. 53 (1), 119-131.
Those authors state they merged existing parcellation labels, and then made a "coronal cut at Talairach coordinate y=26." I have successfully merged the existing labels, but am having trouble figuring out a good way to do the cut. I have tried using the "Make closed path" and "Custom fill" options in tksurfer, but am having trouble getting those to make a clean cut right at y=26.
I'd appreciate any suggestions!
Thank you, Allison
AFNI program FSread_annot is exactly what you are looking for.
On 6/6/11 2:27 PM, Allison R. Kaup wrote:
Hi all,
I have created a DLPFC label in Freesurfer, and am now trying to figure out how to visualize that ROI in SUMA. We have already successfully converted the aparc+aseg to SUMA (using @SUMA_Make_Spec_FS). I am wondering if a similar process can be used on this label file. Or, if there is a better way to convert label files to SUMA format?
I put in the same question to the AFNI folk as well....
Thanks! Allison
On Fri, Jun 3, 2011 at 11:26 AM, Allison R. Kaupakaup@ucsd.edu wrote:
Hello!
I am attempting to create a DLPFC ROI, based on methods described in : Yendiki et al. (2010). Multi-site characterization of an fMRI working memory paradigm: Reliability ofactivation indices. Neuroimage. 53 (1), 119-131.
Those authors state they merged existing parcellation labels, and then made a "coronal cut at Talairach coordinate y=26." I have successfully merged the existing labels, but am having trouble figuring out a good way to do the cut. I have tried using the "Make closed path" and "Custom fill" options in tksurfer, but am having trouble getting those to make a clean cut right at y=26.
I'd appreciate any suggestions!
Thank you, Allison
freesurfer@nmr.mgh.harvard.edu
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Allison R. Kaup -
Anastasia Yendiki -
Anthony Dick