Re: [Freesurfer] convert surface-based label to volumetric space...mri_label2vol?

There should already be two volumes (aparc+aseg.mgz and aparc.a2009s+aseg.mgz) which you can simply convert to nifti with mri_convert file.mgz file.nii.gz On 1/15/19 2:14 PM, Stephanie Hare wrote: > > External Email - Use Caution > > Good afternoon, > > I'm new to Freesurfer; my backgro

Re: [Freesurfer] preproc-sess mask issue

Yea, the 5.3 stream used FSL brain masking to make the masks for the fmri. Version 6 uses the FS brain mask transferred into fmri space. Inevitably, you will have to do a lot of reprocessing. The simplest thing to do is to delete the mask files in session/bold/masks and sessoin/bold/RRR/masks (

[Freesurfer] convert surface-based label to volumetric space...mri_label2vol?

External Email - Use Caution Good afternoon, I'm new to Freesurfer; my background is resting-state fMRI using SPM. Years back, left and right cortical thickness measures were calculated for our sample of schizophrenia patients using the Desikan-Killiany atlas and were input to an

[Freesurfer] QDEC - command not found

External Email - Use Caution Dear freesurfer experts, we installed the last version of freesurfer dev in a centos7 system (8th january 2019) and the matlab runtime to run segmentHA_T1.sh. We could obtain all the files without problems. However, today we tried to open qdec typing q

[Freesurfer] mni --> RAS T1

External Email - Use Caution Is there a 4x4 transformation somewhere to convert mni coordinates to RAS T1 coordinates, I.e. something comparable to the transforms provided by mri_info -tkrscanner Thanks - Don ___ Freesurfer mailing li