Re: [Freesurfer] TRACULA tract reconstruction

Hi Anastasia, I added a screenshot of what I get when I run that command. Thanks again! Joëlle De : freesurfer-boun...@nmr.mgh.harvard.edu de la part de Yendiki, Anastasia Envoyé : samedi 29 avril 2017 02:15 À : Freesurfer support list Objet : Re: [Frees

Re: [Freesurfer] CentOS 7 and freeview

It sounds like a remote display issue. Does glxgears command work for you remotely? Would it be possible for you to update graphics card drive to the latest for the local machine? Best, Ruopeng > On May 2, 2017, at 9:38 PM, Ly, Kien-Ninh Ina,M.D. wrote: > > Hi Freesurfer experts, > > I inst

[Freesurfer] Looking for advices on the best parameters to use with a Montecarlo cluster-wise correction

Hi, I would like to get your opinion about Montecarlo statistics. I know that there is maybe not a simple answer and that it depends probably on the research question but anyway, is there some kind of gold standard about the number of montecarlo simulations / p values ? Speaking about that wit

Re: [Freesurfer] Long-stream comparing differing resolutions

Hi Adam, the long stream is designed to reduce processing noise across longitudinal data. On one hand this can help when comparing arcoss scanners or acquisition, as the methods will be more sensitive to the scanner/acquisition induced differences. However, when switching resolutions, this ap

Re: [Freesurfer] freesurfer 6 hippocampal longitudinal processing workflow question, more LH than RH files

Not sure what is going on, maybe Eugenio knows. On 04/27/2017 10:29 PM, Salil Soman wrote: Thank you for your email. Just to follow up, the rh and lh hippocampal hippoSfVolumes-T1.v10.txt files are present, but for a large number of cases, only the lh hippoSfVolumes-T1.long.v10.txt files are p

Re: [Freesurfer] Consistent volume increases for some regions when using longitudinal stream

Hi Melanie, whenever you change anything consistently in the processing pipeline (extra steps) you can expect a consistent change in the results. The longitudinal pipeline goes through many different steps than the cross-sectional. E.g. for surfaces, they get initialized from the subject temp

Re: [Freesurfer] Looking for advices on the best parameters to use with a Montecarlo cluster-wise correction

On 5/3/17 9:04 AM, Damien MARIE wrote: Hi, I would like to get your opinion about Montecarlo statistics. I know that there is maybe not a simple answer and that it depends probably on the research question but anyway, is there some kind of gold standard about the number of montecarlo simula

[Freesurfer] Two group two time longitudinal analysis

Dear FS experts， I have two group and two times to do longitudinal cross analysis. I looked your answer in https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg45870.html and https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg52032.html Sorry, I can’t understand what you said”

Re: [Freesurfer] freesurfer 6 hippocampal longitudinal processing workflow question, more LH than RH files

Hi Alan, Can you please send me the log file for the longitudinal subfields? Cheers, /Eugenio Juan Eugenio Iglesias ERC Senior Research Fellow Translational Imaging Group University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/ On 3 May 2017, at 14:11, Martin Reuter mail

Re: [Freesurfer] CentOS 7 and freeview

Hi Ruopeng, Thanks. I ran glxgears and see 3 interlocking wheels and this: Running synchronized to the vertical refresh. The framerate should be approximately the same as the monitor refresh rate. 22863 frames in 12.1 seconds = 1896.797 FPS 991 frames in 12.3 seconds = 80.354 FPS 961 frames in 1

[Freesurfer] Question for stat experts

Hi everyone, I have a question for stat experts. I calculated cortical thickness for a region X for a group of patients (Group A: At baseline and after treatment A). Then I calculated cortical thickness for same region X for a group of patients (Group B: At baseline and after treatment B). I hav