Re: [Freesurfer] QAtools for Freesurfer version6?

Hello Seonjoo, Could you send along a link to what you ran/tweaked for “QA tools” on freesurfer ? - rob On Oct 4, 2018, at 8:31 PM, Lee, Seonjoo mailto:sl3...@cumc.columbia.edu>> wrote: External Email - Use Caution I tired to use QA tools for freesurfer version6, but did not have mu

[Freesurfer] QAtools for Freesurfer version6?

External Email - Use Caution I tired to use QA tools for freesurfer version6, but did not have much success. Is anyone know how to tweak QA tools for freesurfer version 6? Thank you. -Seonjoo Lee ___ Freesurfer mailing list Freesurfer@nm

Re: [Freesurfer] Hippocampal segmentation with an additional scan ERROR kvlGEMSMatlab

External Email - Use Caution Thanks! Did you check whether the T2 and the T1 were correctly registered? You can check out the animated gif under mri/transforms in the subject’s directory. Cheers, /E -- Juan Eugenio Iglesias ERC Senior Research Fellow Centre for Medical Image Comp

Re: [Freesurfer] Hippocampal segmentation with an additional scan ERROR kvlGEMSMatlab

External Email - Use Caution I have tried this for two subjects and got the same error. Thanks, Pradeep On Thu, Oct 4, 2018 at 11:14 AM Iglesias Gonzalez, Eugenio < e.igles...@ucl.ac.uk> wrote: > External Email - Use Caution > > Dear Pradeep, > > Did you get this error o

Re: [Freesurfer] Hippocampal segmentation with an additional scan ERROR kvlGEMSMatlab

External Email - Use Caution Dear Pradeep, Did you get this error on several subjects, or only one? Cheers, /Eugenio -- Juan Eugenio Iglesias ERC Senior Research Fellow Centre for Medical Image Computing (CMIC) University College London http://www.jeiglesias.com http://cmictig.cs.

[Freesurfer] Hippocampal segmentation with an additional scan ERROR kvlGEMSMatlab

External Email - Use Caution Hello, I am trying to run the hippocampal segmentation with an additional Hi-res scan using the following command recon-all -s -hippocampal-subfields-T2 and got the following error Error using kvlGEMSMatlab /autofs/cluster/koen/eugenio/InsightT

Re: [Freesurfer] Mac OS free surfer instalation (Vasile, Eduard)

Sure - or if you want to let us know your office number, I could stop by as well. - rob > On Oct 4, 2018, at 12:10 PM, Vasile, Eduard wrote: > > Hi Rob, > > I have matlab installed on my laptop. I am based in South Central, 149, is > there anywhere I can come to talk to you guys? I am in ne

[Freesurfer] Mac OS free surfer instalation (Vasile, Eduard)

Hi Rob, I have matlab installed on my laptop. I am based in South Central, 149, is there anywhere I can come to talk to you guys? I am in need of the software. Kind regards Eduard On 10/4/18, 12:00 PM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of freesurfer-requ...@nmr.mgh.harvard.ed

Re: [Freesurfer] mri_surf2surf --mapmethod nnf not working?

Ok, thanks, that was very helpful. It was the surf2surf_nnfr() call that made me suspicious. And as you say, when run without specifying —mapmethod (sets the map method to nnfr in default) it gives out the surf2surf:Reverse Loop statement. Thanks Olivia On 3 Oct 2018, at 23:31, Greve, Douglas

[Freesurfer] Problem with new tool on thalamus segmentation

External Email - Use Caution I'm reposting my questions that I have done some week ago because without your helpfulness is impossible to go ahead with my analysis. 1- I have installed dev version. I have run the segmentThalamicNuclei.sh but .stats file has been not produced in an