Re: [Freesurfer] ERROR: matrix is ill-conditioned or badly scaled, condno = 1e+08

2022-11-29 Thread Vicente Ferrer
External Email - Use Caution Hi, I decided to eliminate de Female vs Male distintion leaving only three groups and the program is giving the same error. I don't know what is happening because I did the analysis without differianciating any groups and it works. So I imagine the

Re: [Freesurfer] ERROR: matrix is ill-conditioned or badly scaled, condno = 1e+08

2022-11-29 Thread Vicente Ferrer
External Email - Use Caution Hi profesor Greve, I believe I have located the problem, as you will see in the code below it seems one of the groups (FemalePDMCI) has only 7 subjects and (MALEPDMCI) has 13 which means the regression won't have enough DOF. They amount of DOF needed

Re: [Freesurfer] Creating or Using Alt Templates

2022-11-29 Thread Zollei, Lilla,Ph.D.
How old is your pediatric subject? Collaborators have had success using the standard pipeline from about 4.5yrs of age. You do not need a new / different template in case you want to process that population. You might however want to read about some child-specific manual edit recommendations: ht

Re: [Freesurfer] Creating or Using Alt Templates

2022-11-29 Thread Douglas N. Greve
You don't need a different template for the surface-based analysis. I'm not sure about the volume-based analysis. I'm cc'ing Lilla in case she wants to weigh in. On 11/24/2022 11:53 AM, Olivier Brown wrote: External Email - Use Caution Dear Freesurfer experts, I am using a pediatric

Re: [Freesurfer] time-series from Yeo's Network components

2022-11-29 Thread Douglas N. Greve
When you run selxavg3-sess, add the -svres flag. This will save the residuals (ie, the time series without the nuisance variables) On 11/24/2022 4:16 PM, std...@virgilio.it wrote: External Email - Use Caution Hi list, I  would extract the rs-fMRI time-series from spitted components

[Freesurfer] new public dataset: one brain - 557 MRI images

2022-11-29 Thread roland.opfer
External Email - Use Caution There is a new public MRI dataset available: The dataset contains 557 MRI images of the brain of a single healthy male volunteer: . scans were acquired on 116 different MRI machines . For some scanners, the volunteer was scanned in several imaging sessi

[Freesurfer] PETsurfer: PVC without psf of the scanner

2022-11-29 Thread Federica
External Email - Use CautionDear experts,  mri_gtmpvc --i pet.nii.gz --reg template.reg.lta --psf FWHM --seg gtmseg.mgz --default-seg-merge  --auto-mask 1 .01 --mgx .01 --o gtmpvc.output About this command, is there the possibility for PETsurfer to compute the fwhm of the psf of the