[Freesurfer] Freesurfer and Tracula installation.

Hi everybody, I installed CentOS 6.6 in a machine without using internet connexion. Everything is fine. I would like now to install Freesurfer and Tracula mounting a NTFS partition from an external hard disk. also I note that I can not copy Freesurfer in a FAT32 partition. Actually I'm not sure t

[Freesurfer] Fwd: How to smoothing area with mri_surf2surf?

-- Forwarded message -- From: fatma zribi Date: 2013/9/3 Subject: How to smoothing area with mri_surf2surf? To: Bruce Fischl Dear Bruce, Would you mind help me. I would like to smooth area surface with the command mri_surf2surf. I have done this instruction: mri_surf2surf

Re: [Freesurfer] function that do the same step like qcache?

> cheers > Bruce > > On Tue, 30 Jul 2013, fatma zribi wrote: > > Dear Bruce, >> >> I try to execute this command to smooth and resample data but I have one >> message of error: >> >> mri_surf2surf --srcsubject s000_open_brain_sanlm_+TIR_**norml

Re: [Freesurfer] function that do the same step like qcache?

ct and --trgsubject > > > cheers > Bruce > > > On Mon, 29 Jul 2013, fatma zribi wrote: > > mri_surf2surf --hemi lh --s s000_open_brain_sanlm_+TIR_**normlalized >> --sval curv --src_type curv --fwhm 10 --trg_type curv --tval >> curv.10 >> >> >> 2013/7/29

Re: [Freesurfer] function that do the same step like qcache?

; you can use mri_surf2surf within subject I believe, but Doug can confirm > (although he's traveling so it may be a bit). You can also do it > interactively in tksurfer. > > cheers > Bruce > > > > On Mon, 29 Jul 2013, fatma zribi wrote: > > Dear Bruce, >>

[Freesurfer] function that do the same step like qcache?

Dear Bruce, Would you mind tell me if there is a function of freesurfer that I can use to do the same step of qcache to smooth and interpolate in the fsaverage one subject with mri_surf2surf I can smooth only or align one subject with an average. thank you for you help. with best regards, Fatma _

[Freesurfer] how to use mri_surf2surf to smooth sulc ?

Dear Bruce, Would you mind help me. I have to smooth a sulc data with the command mri_surf2surf but it don't work. I have triyed with curv data it work very well i have put this command : mri_surf2surf --hemi lh --s s000_open_brain_sanlm_+TIR_normlalized --sval sulc --src_type sulc --fwhm-trg 10

[Freesurfer] Fwd: How to use read_curv?

-- Forwarded message -- From: fatma zribi Date: 2013/7/11 Subject: Re: How to use read_curv? To: Bruce Fischl i have used read_surf to read ?h.white data. Now i would like to use curv and sulc file of FreeSurfer and extract the variance compared two one template of the average

Re: [Freesurfer] How to use read_curv?

eld over > the surface, not the surface itself, which is why it is nvertices x 1. Use > read_surf to read the surface topology in > > cheers > Bruce > > On Thu, 11 Jul 2013, fatma zribi wrote: > > Dear Bruce, >> Now i would like to use the function read_curv but I hav

Re: [Freesurfer] Fwd: Fwd: how to use mris_register?

Dear Bruce, thank you very much with best regards, Fatma 2013/7/11 Bruce Fischl > glad to hear it > Bruce > > On Thu, 11 Jul 2013, fatma zribi wrote: > > Dear Bruce, >> >> Finally the function work well. >> Thank you for your help. >> >> With be

[Freesurfer] How to use read_curv?

Dear Bruce, Now i would like to use the function read_curv but I have a problem of dimension .. curv is a vector of [143704,1] and vertices must be a matrix of [3, 143704] Would you mind help me and send an exemple of the use of the function wiht the visualisation of the brain [curv, fnum] = read

Re: [Freesurfer] Fwd: Fwd: how to use mris_register?

Dear Bruce, Finally the function work well. Thank you for your help. With best regards, Fatma 2013/7/10 fatma zribi > SURFACE INFO > type: MRIS_TRIANGULAR_SURFACE=MRIS_ICO_SURFACE > num vertices: 143704 > num faces : 287404

Re: [Freesurfer] Fwd: Fwd: how to use mris_register?

0.874440 avgvtxdist 1.078393 stdvtxdist 0.419625 vtx0xyz 30.075546 -90.141014 -31.145763 2013/7/10 Bruce Fischl > and how about: > > mris_info s000_open_brain_sanlm_+TIR_**normlalized/surf/lh.sphere > > > On Wed, 10 Jul 2013, fatma zribi wrote: > > Dear Bruc

Re: [Freesurfer] Fwd: Fwd: how to use mris_register?

/surf/lh.sphere > > cheers > > Bruce > > On Wed, 10 Jul 2013, fatma zribi wrote: > > >> >> ------ Forwarded message -- >> From: fatma zribi >> Date: 2013/7/10 >> Subject: Re: [Freesurfer] Fwd: how to use mris_register? >> To: Bru

[Freesurfer] Fwd: Fwd: how to use mris_register?

-- Forwarded message -- From: fatma zribi Date: 2013/7/10 Subject: Re: [Freesurfer] Fwd: how to use mris_register? To: Bruce Fischl Copie1/s000_open_brain_sanlm_+TIR_normlalized$ ls -l total 704 drwxrwxr-x 2 zribi.f scalp 4096 Jul 5 17:12 bem drwxrwxr-x 2 zribi.f scalp 4096

Re: [Freesurfer] Fwd: how to use mris_register?

Hi Bruce, Yes i can run ls -l in the directory 2013/7/10 Bruce Fischl > Hi Fatma > > are you sure you don't have a typo in the path? Can you run ls -l on that > file? > Bruce > > On Wed, 10 Jul 2013, fatma zribi wrote: > > >> >> -- Forwa

[Freesurfer] Fwd: how to use mris_register?

-- Forwarded message -- From: fatma zribi Date: 2013/7/10 Subject: Re: [Freesurfer] how to use mris_register? To: Bruce Fischl Hi Bruce, Thank you very much for your help but it still don't work. mris_register s000_open_brain_sanlm_+TIR_normlalized/surf/lh.s

[Freesurfer] how to use mris_register?

Dear Mr, When I execute mris_register to register one subject to a template., I have this message of error: mris_register -1 s000/surf/lh.sphere avg_all_subjects_SD/lh.reg.template.tif sphere_reg treating target as a single subject's surface... $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nic