Great thanks Douglas! I'm glad that this is available, I wasn't too keen on using the 'flip the brain' method of looking for hemisphere asymmetries.
Just a few questions regarding the first step - Apply an existing atlas (fsaverage_sym); this looks like a "for" loop, which I'm not great at figuring out. I would like to know how to actually do this.
It seems like I would need to give it a list of all my subjects so that it can go through each subject separately without me having to run each participant separately. Is that correct? If so, and I have 40 participants, I'll need to leave the computer for a few days to do this. Is that correct?
Lastly, how do I create the subject list? I tried just creating a list of my subjects using text mate and keeping it in the subjects folder, then using that in place of (subject list). This didn't work.
Thanks again!
On Sat, Nov 30, 2013 at 2:34 PM, Douglas Greve greve@nmr.mgh.harvard.eduwrote:
yep, we have an existing stream complete with documentation and a publication you can cite! http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi
On 11/30/13 12:59 PM, krista kelly wrote:
Hello,
I need to do a within group hemisphere comparison to see if there are any hemisphere asymmetries in a patient group. I would like to do this in QDec or if possible, somehow do it in freesurfer without using Qdec. I asked this question two years ago and you mentioned that you were working on this and it should be available soon. Has there been any progress?
Thanks! Krista
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
On 12/3/13 11:08 PM, krista kelly wrote:
Great thanks Douglas! I'm glad that this is available, I wasn't too keen on using the 'flip the brain' method of looking for hemisphere asymmetries.
Just a few questions regarding the first step - Apply an existing atlas (fsaverage_sym); this looks like a "for" loop, which I'm not great at figuring out. I would like to know how to actually do this.
It seems like I would need to give it a list of all my subjects so that it can go through each subject separately without me having to run each participant separately. Is that correct? If so, and I have 40 participants, I'll need to leave the computer for a few days to do this. Is that correct?
Yes.
Lastly, how do I create the subject list? I tried just creating a list of my subjects using text mate and keeping it in the subjects folder, then using that in place of (subject list). This didn't work.
You're half way there, just set subjectlist = `cat subjectlistfile` where subjectlistfile is the file that you created (which can be called anything) doug
Thanks again!
On Sat, Nov 30, 2013 at 2:34 PM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
yep, we have an existing stream complete with documentation and a publication you can cite! http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi On 11/30/13 12:59 PM, krista kelly wrote:Hello, I need to do a within group hemisphere comparison to see if there are any hemisphere asymmetries in a patient group. I would like to do this in QDec or if possible, somehow do it in freesurfer without using Qdec. I asked this question two years ago and you mentioned that you were working on this and it should be available soon. Has there been any progress? Thanks! Krista _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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.
Great thanks! I'll try that. I've also figured out that I can just add the subjects into the brackets that say subject list. But I'll try your method just in case I'm wrong. Thanks again!
On Tue, Dec 3, 2013 at 11:26 PM, Douglas Greve greve@nmr.mgh.harvard.eduwrote:
On 12/3/13 11:08 PM, krista kelly wrote:
Great thanks Douglas! I'm glad that this is available, I wasn't too keen on using the 'flip the brain' method of looking for hemisphere asymmetries.
Just a few questions regarding the first step - Apply an existing atlas (fsaverage_sym); this looks like a "for" loop, which I'm not great at figuring out. I would like to know how to actually do this.
It seems like I would need to give it a list of all my subjects so that it can go through each subject separately without me having to run each participant separately. Is that correct? If so, and I have 40 participants, I'll need to leave the computer for a few days to do this. Is that correct?
Yes.
Lastly, how do I create the subject list? I tried just creating a list of my subjects using text mate and keeping it in the subjects folder, then using that in place of (subject list). This didn't work.
You're half way there, just set subjectlist = `cat subjectlistfile` where subjectlistfile is the file that you created (which can be called anything) doug
Thanks again!
On Sat, Nov 30, 2013 at 2:34 PM, Douglas Greve greve@nmr.mgh.harvard.eduwrote:
yep, we have an existing stream complete with documentation and a publication you can cite! http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi
On 11/30/13 12:59 PM, krista kelly wrote:
Hello,
I need to do a within group hemisphere comparison to see if there are any hemisphere asymmetries in a patient group. I would like to do this in QDec or if possible, somehow do it in freesurfer without using Qdec. I asked this question two years ago and you mentioned that you were working on this and it should be available soon. Has there been any progress?
Thanks! Krista
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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@nmr.mgh.harvard.edu
-
Douglas Greve -
krista kelly