Re: [Freesurfer] freesurfer segmentation: perirhinal Roi

Dear Bruce, Many thanks for you kind answer. I sampled the perirhinal roi label into the volume using the suggested command line: "mri_label2vol --subject s6904 --fill-ribbon --label lh.perirhinal.label --o lh.perirhinal.volume.nii --hemi lh --identity". The obtained mask seems to cover well

Re: [Freesurfer] freesurfer segmentation: perirhinal Roi

Dear Bruce, Thank you very much for your kind help! Best regards - Mail original - De: "Bruce Fischl" À: "Freesurfer support list" Envoyé: Lundi 22 Janvier 2018 16:12:10 Objet: Re: [Freesurfer] freesurfer segmentation:

Re: [Freesurfer] freesurfer segmentation: perirhinal Roi

Dear Bruce, Thank you for your answer! I just display the "T1.mgz" image (mri folder) using Freeview and then loaded the "lh/rh.perirhinal_exvivo.label" rois (label folder). If this is not the good way to do it, please, could you explain more the procedure? What do you mean by MT and PC?

Re: [Freesurfer] freesurfer segmentation: perirhinal Roi

Dear Bruce, Many thanks for your kind help! I put the subject data on your ftp site (s8201.tar). Best regards, Mohamed - Mail original - De: "Bruce Fischl" À: "Freesurfer support list" Envoyé: Jeudi 18 Janvier 2018

Re: [Freesurfer] freesurfer segmentation: perirhinal Roi

Dear Bruce, Many thanks for you answer! I am trying to rerun the cortical reconstruction with the version 6.0 but I got the following error. May I have a license for this Freesurfer version 6.0? Thanks a lot for your kind help! Best regards, Mohamed

Re: [Freesurfer] Trans. : VBM question

Dear Douglas, Thank you very much for you answer. I checked all the aparc stat files (/Freesurfer/subjects/subjectID/stats/lh.aparc.stats; lh.aparc.a2009s.stats ) and my region of interest "perirhinal" (region extending on BA35 and BA36 areas) is only present on the lh/rh.BA.stats files

[Freesurfer] Trans. : VBM question

Dear All, Does anyone have an answer to the following VBM question? Many thanks in advance, Regards -Mail original- De: "Mohamed Ali Bahri" À: "Freesurfer support list" Envoyé: Jeudi, Novembre 2, 2017 06:08:33 PM Objet:

[Freesurfer] Recon-all error

Dear Experts, I have the following error with recon-all (freesurfer v 5.3) in the orig_nu.log file. Could anyone help to solve the problem? Many thanks, Mohamed Iteration 1 Fri Feb 26 14:13:20 CET 2016 nu_correct -clobber

[Freesurfer] FreeSurfer pve correction tool

Dear FreeSurfer Experts, Are there any documentation comes out for the pve correction tool implemented in the FreeSurfer V6? Many thanks in advance, Best, Mohamed ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] PVE correction tool within the V 6 beta

Dear Greve, Thank you for your answer. Steps 1 and 2 are ok but in step 3 there are some unclear options (e.g. --mgx .01) Could you please explain which method is used for the pve correction and how can I obtain the 4D-pve-corrected images? Is it possible to extract the TACS of all regions?