[Freesurfer] overlay on subcortical surfaces

External Email - Use Caution Dear Freesurfer Experts, As it happens for cortical surface mapping I would like to obtain the same for subcortical structures. I have generated the subcortical surfaces using fsaverage brain’s aseg.mgz with the tool given in: https://github.com/tho

Re: [Freesurfer] Deconvolution with FSFAST

When you say deconvolution, what do you mean exactly? There is an FIR model (finite impulse response) that will extract the hemodynamic response without any assumptions, ie, the signal average at stimulus onset, the signal average at 1TR post onset, the signal average at 2TR post onset, etc. On

Re: [Freesurfer] overlay on subcortical surfaces

Hi Catarina I'm not sure how you would do a surface overlay for a volumetric structure. Where would you map the interior of it? cheers Bruce On Mon, 12 Aug 2019, cr...@cam.ac.uk wrote: External Email - Use Caution Dear Freesurfer Experts, As it happens for cortical surfa

Re: [Freesurfer] Fwd: multimodal analysis (pet and cortical thickness relationship) using --pvr

External Email - Use Caution Thanks Doug. Another question, how do i find the p-values for voxel-wise map corrected for multiple comparisons at a voxel (rather than cluster) level (perm.th40.abs.sig.voxel.mgh). There is no summary file for it. Best, Paul On Wed, Aug 7, 2019 at 11:

Re: [Freesurfer] Fwd: multimodal analysis (pet and cortical thickness relationship) using --pvr

I'm not sure what you are looking for. The voxel-wise analysis is voxel-wise, so there is no summary file for it On 8/12/2019 11:13 AM, miracle ozzoude wrote: External Email - Use Caution Thanks Doug. Another question, how do i find the p-values for voxel-wise map corrected for multipl

Re: [Freesurfer] Deconvolution with FSFAST {Disarmed}

External Email - Use Caution Hi Doug, I am referring to deconvolution in the SPM sense, where they use (something like) ridge regression to get an estimate of neuronal activity from the measured BOLD response. The idea is to use that neural time series to construct predictors for a

[Freesurfer] nu_correct error

External Email - Use Caution Hello Dear FreeSurfer Developers, I'm attempting to run some of data with recon-all code, and after some success run on several data, now I get the following error message even when I run those data that ran well before: nu_evaluate: crashed while runn

[Freesurfer] reconstructing female vs male data

External Email - Use Caution Hello, I am a graduate student at the University of Arizona and we have been using the FreeSurfer Program to reconstruct MRI data from healthy patients and patients with a mild cognitive impairment. We are comparing the statistics for different brain r