[Freesurfer] Support for GPU on Freesurfer

External Email - Use Caution Hi there, I was wondering if there is support for GPU on FreeSurfer. I really would like to use it on GPU because is taking 9 hours per subject to recon-all. Thanks a lot and have a nice day, Aldo Camargo Senior Postdoctoral Fellow at the University

[Freesurfer] Temporal lobe mask

External Email - Use Caution Hi there, I would like to know where I can find a mask in MNI space for the temporal lobe. Thanks a lot in advance for your help, Aldo Camargo ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu htt

Re: [Freesurfer] How to cite Freesurfer

own%257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%253D%257C1000%26sdata%3DBTYOt4wc%252Fte6cyQ3CB3bMWGmlMDSecIU3EZnbVNlsF0%253D%26reserved%3D0> Allison On Sep 3, 2021, at 2:51 PM, Camargo, Aldo mailto:acama...@som.umaryland.edu>> wrote: External Email - Use Caution External Email - Use Caution Hi Free

[Freesurfer] How to cite Freesurfer

External Email - Use Caution Hi Freesurfer group: How should I cite freesurfer in my manuscript ? Thanks a lot and have a nice day, Aldo ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailm

[Freesurfer] CSF file

External Email - Use Caution Hi Freesurfer experts: I used recon-all all to in my MPRAGE image and I would like to know which file is the corresponding to the CSF (cerebral spinal fluid). Also, which is the correct file to choose for the brain extracted image, because I see 2 fi

Re: [Freesurfer] How to extract the GM and WM

WM Cheers Bruce From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Camargo, Aldo Sent: Sunday, May 23, 2021 11:25 PM To: Freesurfer support list Subject: [Freesurfer] How to extract the GM and WM External Email - Use Caution External Email - Use Caution Hi

Re: [Freesurfer] How to extract the GM and WM

r-boun...@nmr.mgh.harvard.edu>> On Behalf Of Camargo, Aldo Sent: Sunday, May 23, 2021 11:25 PM To: Freesurfer support list mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: [Freesurfer] How to extract the GM and WM External Email - Use Caution External Email - Use Caution Hi Freesurfer e

[Freesurfer] How to extract the GM and WM

External Email - Use Caution Hi Freesurfer experts: I want to extract the White Matter and the Gray Matter from a T1 image. I have extracted the brain by using the command: recon-all with the option -autorecon1 Thanks a lot and have a nic day, Aldo

[Freesurfer] How to measure gray matter atrophy

External Email - Use Caution Hi Freesurfer experts: Do you know how to measure the gray matter atrophy using FreeSurfer ? If so, please could you give me a tutorial to follow or some tips ? Thanks a lot and have a nice day, Aldo Camargo

[Freesurfer] How can I get only aparc+aseg.mgz

External Email - Use Caution Hi Freesurfer experts: I would like to get the aparc+aseg.mgz file, which options of recon-all should I use to get only that file. Because recon-all takes several hours. Have a nice day, Aldo ___ Freesurf

Re: [Freesurfer] How to re-run recon-all

Camargo, Aldo Sent: Friday, August 28, 2020 3:11 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] How to re-run recon-all External Email - Use Caution Hi Freeserufer experts: By mistake I cancel the recon-all when it was about 3 hours of processing. There is a way to re-run the

[Freesurfer] How to re-run recon-all

External Email - Use Caution Hi Freeserufer experts: By mistake I cancel the recon-all when it was about 3 hours of processing. There is a way to re-run the recon-all and that continues where it was stopped ? Thanks a lot, Aldo ___ F

Re: [Freesurfer] Run recon-all in MATLAB

rv()' from Matlab to read morphometry data files like /surf/lh.area. If you want to run recon-all (or any other system command) from Matlab, have a look at the Matlab 'system' function. I would recommend against it though. Best, Tim > On August 26, 2020 at 7:10 PM "Camar

[Freesurfer] Run recon-all in MATLAB

External Email - Use Caution Hi Freesurfer community, Does someone know how to run recon-all on MATLAB ? I tried the settings suggest on https://web.stanford.edu/group/vista/cgi-bin/wiki/index.php/FreeSurfer, but still is not working; Thanks a lot in advance and have a great

[Freesurfer] How to run recon-all for different subjects and each subject with different sessions ?

External Email - Use Caution Hi Freesurfer experts, I have a question: How to run recon-all for different subjects and each subject with different sessions ? Thanks a lot in advance and have a nice day, Aldo ___ Freesurfer mailing li

[Freesurfer] Coregistration to MNI

External Email - Use Caution Hi Freesurfer experts, I want to coregister a PET image to the MNI space, can I use mri_cvs_register ? Thanks a lot, Aldo Camargo ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.

[Freesurfer] Extract the cerebellum

External Email - Use Caution Hi Freesurfer experts, I am trying to extract only the cerebellum and then save it to nii file. How can I do it with freesurfer ? Thanks a lot and have a nice day, Aldo ___ Freesurfer mailing list Freesur