[Freesurfer] Mean lGI value extraction

dear all, I am trying to extract the mean values of lgi from the cortex from a group of subjects. I found the following command useful in extracting for one subject: mris_anatomical_stats -mgz -f lh.lgi.stats -b -a aparc.annot -c lh.lgi.annot.ctab -t pial_lgi $SUBJECT lh However, I have a lot

Re: [Freesurfer] More information about mri_cvs_register

Thanks, I will look into this. --Lilla On Mon, 15 Nov 2010, Joakim Vinberg wrote: > Lilla, > > Terrific! Here is the trace file. > > Best, > > Joakim > > -Original Message- > From: Lilla Zollei [mailto:lzol...@nmr.mgh.harvard.edu] > Sent: Monday, November 15, 2010 7:37 AM > To: Joakim V

Re: [Freesurfer] More information about mri_cvs_register

Lilla, Terrific! Here is the trace file. Best, Joakim -Original Message- From: Lilla Zollei [mailto:lzol...@nmr.mgh.harvard.edu] Sent: Monday, November 15, 2010 7:37 AM To: Joakim Vinberg Cc: freesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] More information about mri_cvs_regist

Re: [Freesurfer] Running multiple GLM analyses together

yes, you can. If you only have one group, then it won't matter whether you use DODS or DOSS doug Matt Russell wrote: > Hello, > >I'm currently trying to run an analysis on data that has 1 > group and 5 covariates. > As each of these covariates of interest independently, I would like to

[Freesurfer] Running multiple GLM analyses together

Hello, I'm currently trying to run an analysis on data that has 1 group and 5 covariates. As each of these covariates of interest independently, I would like to calculate a GLM for each of them using FreeSurfer. Is it possible to run all 5 of these in one glm_fit call? If so, how would I s

Re: [Freesurfer] More information about mri_cvs_register

Hi Joakim, > First the follow-up question: We are interested specifically in > multi-modal integration with CVS. In particular, we are curious about > functional data in specific sub-cortical regions. Would applyMorph be > able to morph a functional overlay volume (.nii file?) Yes. It can read n

Re: [Freesurfer] BrainSegVol different in wmparc and aseg

Jeff, Yes, you would only want to take it from the aseg.stats. I believe this is fixed or on the list to be fixed for future versions. Allison -- On Fri, 12 Nov 2010, Jeff Sadino wrote: > bump :) > > On Tue, Nov 9, 2010 at 11:38 AM, Jeff Sadino wrote: > >> Hello, >> >> When I look at the Brain

Re: [Freesurfer] freeview load overlay error...

What does mris_info show on the overlay file? On 11/14/10 11:08 PM, Gonzalo Rojas Costa wrote: Hi: I generated a surface with: mri_vol2surf --src zstat3.nii.gz --src_type nifti --srcreg ../registro.dat --hemi lh --projfrac 0.5 --out ./zstat3_lh.w --out_type w then I tried to load zstat3_lh

Re: [Freesurfer] cortical surface areas

Hi Ed, the surface areas are usually in the aparc files as they are functions of the surface models, while the aseg is a volume segmentation. cheers Bruce On Mon, 15 Nov 2010, Ed Gronenschild wrote: > Hi, > > Is there a tool to derive the cortical surface areas of > the cortical structures lis

[Freesurfer] longitudinal processing of volumetry of same patient different dates...

Hi: How can I do a comparisson between the volumetry of the same patient but with MRI of different dates (longitudinal study) ?... Sincerely, Gonzalo Rojas Costa ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.har

[Freesurfer] cortical surface areas

Hi, Is there a tool to derive the cortical surface areas of the cortical structures listed in aseg.stats? Ed ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in th