Re: [Freesurfer] mri_hippocampal-subfields error: MATLAB exited for no reason (Iglesias Gonzalez, Juan E.) Re: Freesurfer Digest, Vol 208, Issue 17

External Email - Use Caution Dear Developer and Eugenio, Thank you for the suggestion! I tried to cd into FreeSurfer root or the specific folder which contains the data (i.e., /usr/local/freesurfer/subjects/S013 or /usr/local/freesurfer/subjects), and also tried to make the option

[Freesurfer] Fw: Problem when using freesurfer

External Email - Use Caution Dear Sir or Madam, Hope you are doing well! Thank you very much for your contribution to the freesurfer software which offers great help to research in the neuroimaging area. However, I met a problem when using it and I hope you can help me with it. T

[Freesurfer] Samseg pallidum issue

Hello FreeSurfer Developers, I ran longitudinal samseg on a group of subjects with MS (each with 5 MRI timepoints over 2 years) and found that the average volume of the pallidum increased over time, while other subcortical volumes (caudate, putamen, thalamus) decreased. I also tried longitudina

[Freesurfer] mri_glmfit with pvr

External Email - Use Caution Thanks If I have 4 groups GroupDescriptorFile 1 Title XXX Class G1 Class G2 Class G3 Class G4 Input subj1 G1 Input subj2 G3 Input subj3 G2 Input subj4 G2 Input subj5 G4 Are the contrasts below corrected? G1_only_thick 1 0 0 0 G2_only_th

[Freesurfer] LGI FS 7.1

External Email - Use Caution Dear FS team, what are differences if any between LGI in FS 5.3 and 7.1? Thank you so much, best wishes, Elisabetta ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/m

[Freesurfer] Ill-Conditioned/Badly Scaled Matrix Error

External Email - Use Caution Hello I am trying to a whole brain analysis with one group and five covariates. I am getting an error that the design matrix may be ill-conditioned or badly scaled. I checked over the fsgd file in TextEdit and it seems to be formatted correctly. I a

Re: [Freesurfer] Hippocampal Subfields error "no such file or directory"/"dyld library not loaded"

Dear Chester, What command did you exactly run? There seems to be a mix of T1 and T1+additionalMRI segmentation commands in there. Cheers, /Eugenio Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com > On Jun 9, 2021, at 00:23, Chester Ka

Re: [Freesurfer] recon-all errors

External Email - Use Caution Doug, Following up on this. Where can I upload the data for you to take a look? Thanks, Mark Mark Wagshul, PhD Associate Professor Gruss Magnetic Resonance Research Center Albert Einstein College of Medicine Bronx, NY 10461 Ph: