Try running make_average_volume. This will produce an aseg.mgz file with all the ROIs merged across all subjects
On 07/13/2016 07:10 AM, Dr Sampada Sinha wrote: > Dear Bruce, I am trying to generate the following picture (please see > attached) for eod vs lod groups. Can you please tell me how to do this? > > Thanks and regards, > > Sampada > > On Tue, Jul 12, 2016 at 6:44 PM, Bruce Fischl > <fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>> wrote: > > Hi Sampada > > why not just take the volume of the hippocampus from the > aseg.stats? Why do you want an mgz? You just want one number per > subject, right? > > Bruce > > > > On Tue, 12 Jul 2016, Dr Sampada Sinha wrote: > > Dear Bruce, > > Thanks for you for your response. I am trying to generate an > average > hippocampal volume and its correlation with HAM-D score in > early and late > onset depression (eod vs lod). One way I tried to do it was by > binarizing > and concatanating the hippocampal volumes and then run > mri_glmfit. But, I am > stuck at glm_fit and would be grateful if you can let me know > how to proceed > from here. How do I run the glm_fit between eod and lod > patients? Secondly, > after running glm_fit how do I calculate the significance from > sig.mgh? > > Appreciate all your help. > > Thanks and regards, > > Sampada > > On Sun, Jul 10, 2016 at 7:15 PM, Bruce Fischl > <fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>> > wrote: > Hi Sampada > > can you elaborate a bit? What are you trying to achieve? > Do you > want an > average hippocampus? Average maps of subfields? What > hypothesis > are you > trying to test? The individual subject data is not > resampled to > a common > coordinate system, so just averaging them as is won't > produce > anything > interested. > > cheers > Bruce > > On Sun, 10 Jul 2016, Dr > Sampada Sinha wrote: > > > Dear freesurfer experts, > > Will you please let me know if it's possible to get one > average mgz image > > file by concatenating the hippocampal volumes of different > subjects using > > dev version? Since, I already have the hippocampal > subfields > mgz volume > > files, I intend to run the glmfit later on between two > groups > to get sig.mgh > > files. > > > > Thanks and regards? > > > > Sampada > > > > > > -- > > Sampada > > Pre-doctoral student > > Department of Geriatric Mental Health (DGMH) > > King George Medical University > > Lucknow-226003 > > India > > > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > 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. > > > > > -- > Sampada > Pre-doctoral student > Department of Geriatric Mental Health (DGMH) > King George Medical University > Lucknow-226003 > India > > > > > > > > > > > _______________________________________________ > 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. > > > > > -- > Sampada > Pre-doctoral student > Department of Geriatric Mental Health (DGMH) > King George Medical University > Lucknow-226003 > India > > > > > > > */ > /* > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
