Re: [Freesurfer] -qcache and thickness questions

Objet : Re: [Freesurfer] -qcache and thickness questions Yes, looks like small registration errors. I don't think it is problematic. Any vertex where even a single subject has a 0 should be masked out of the final analysis. On 12/3/2019 1:42 PM, Joëlle Ismay Rosanne Van Der Molen wrote

Re: [Freesurfer] Keep manual edits of older freesurfer versions?

Rosanne Van Der Molen wrote: > > External Email - Use Caution > > Dear FreeSurfer experts, > > > I have a question regarding manual edits and change of FreeSurfer version. > > > In our lab, we have thus far processed most of our T1 scans using FS version > 5.1

[Freesurfer] Keep manual edits of older freesurfer versions?

External Email - Use Caution Dear FreeSurfer experts, I have a question regarding manual edits and change of FreeSurfer version. In our lab, we have thus far processed most of our T1 scans using FS version 5.1 and have performed manual edits when needed. We are now updating

Re: [Freesurfer] TRACULA tract reconstruction

Hi Anastasia, Ok thanks a lot! I will download the 6.0 version. Best, Joëlle De : freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> de la part de Joëlle Ismay Rosanne Van Der Molen <joelle.vandermo...@etu.unige.c

Re: [Freesurfer] TRACULA tract reconstruction

es the error. What do you see when you run "ls /Users/joelle/Documents/Tracula_new/tmp/5047_3_3T.long.5047_3T_base/dmri"? Thanks! a.y From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Joëlle Ismay

Re: [Freesurfer] TRACULA tract reconstruction

___ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Joëlle Ismay Rosanne Van Der Molen [joelle.vandermo...@etu.unige.ch] Sent: Tuesday, April 25, 2017 4:15 AM To: Freesurfer support list Subject: Re: [Freesurfer] TRACULA tract reconstruction Hi An

Re: [Freesurfer] TRACULA tract reconstruction

to:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of Joëlle Ismay Rosanne Van Der Molen <joelle.vandermo...@etu.unige.ch<mailto:joelle.vandermo...@etu.unige.ch>> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] TRACULA tract reconstruction

[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Joëlle Ismay Rosanne Van Der Molen [joelle.vandermo...@etu.unige.ch] Sent: Thursday, March 30, 2017 7:27 AM To: Freesurfer support list Subject: Re: [Freesurfer] TRACULA tract reconstruction ​Hi Barbara, Thank you for the tip, I managed to

Re: [Freesurfer] TRACULA tract reconstruction

in the past to anonymize my dicom images, maybe you'd like to try that? Best wishes, Barbara On 29/03/2017 13:30, Joëlle Ismay Rosanne Van Der Molen wrote: ​Hi Anastasia, Yes, I use dicom images as input for Tracula. I also specify the bvecs files, as Tracula returns an error if

Re: [Freesurfer] TRACULA tract reconstruction

construction Hi Joëlle – What images do you pass as input to TRACULA? Do you pass the dicom itself, or a converted file? Happy to look at your dicom, if it’s anonymized. a.y From: <freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of

[Freesurfer] TRACULA tract reconstruction

??Dear Tracula experts, I am applying Tracula on a longitudinal data set, and have some questions I am hoping you could help me with: Firstly, upon visual inspection, several tracts appear to be quite messy, or small (on the default freeview threshold) for most subjects. However, the -stat