Re: [Freesurfer] Using Freesurfer Commands for Neonate

"mri_aparc2aseg" should work. Lilla On Fri, 2 Aug 2019, Mahshid Fouladivanda wrote: Dear Experts,   I have a neonate  MRI Image which its parcellation file, surface files and the ribbon are not created by freesurfer. I have created an annotation file for it using "write_annotation". Now, fo

Re: [Freesurfer] How to Divide the Brain Surface Parcells to more regions

You'll have to sample your volume-based segmentation onto the surface using mri_vol2surf (you might have to play with the projection fraction). Then use mris_seg2annot. If you run it with --help, you will get an example. The tricky part is getting the color table set up correctly On 8/1/2019 4:

Re: [Freesurfer] How to Create Cortex Parcellation Using "mri_aparc2aseg"?

If you look in the recon-all.log file for any subject, you will see a mri_aparc2aseg command line. YOu can use that specifying your annot and the new output name. On 8/1/2019 4:58 PM, Mahshid Fouladivanda wrote: External Email - Use Caution Dear experts, I have a segmentation file of

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

Each PVR adds a single column to the design matrix. In a two group design, this can make it tricky to set up. Let's say you have 10 of group1 and 20 of group2. You will need to create two PVR files, each with 30=10+20 frames. In the first one, the first 10 frames will be cortical thickness (or a

[Freesurfer] Using Freesurfer Commands for Neonate

External Email - Use Caution Dear Experts, I have a neonate MRI Image which its parcellation file, surface files and the ribbon are not created by freesurfer. I have created an annotation file for it using "write_annotation". Now, for further processing I need to use freesurf

[Freesurfer] How to Create Cortex Parcellation Using "mri_aparc2aseg"?

External Email - Use Caution Dear experts, I have a segmentation file of all the tissues in the brain and the ribbon file which were extracted by another toolbox rather than freesurfer. Also, I have created the annotation file using "write_annotation.m". Now, I wanna create a

[Freesurfer] How to Divide the Brain Surface Parcells to more regions

External Email - Use Caution Dear Freesurfer Experts, I would like to divide the surface parcellations of the neonatal brain. The parcells were extracted using Draw_EM (Developing brain Region Annotation With Expectation-Maximization), an atlas based segmentation, from cortical

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

External Email - Use Caution Please, can anyone help me with this. Thank you Paul -- Forwarded message - From: miracle ozzoude Date: Wed, Jul 31, 2019 at 2:11 PM Subject: multimodal analysis (pet and cortical thickness relationship) using --pvr To: Douglas N Grev

Re: [Freesurfer] Running FSL randomise on FS cortical thickness data {Disarmed} {Disarmed}

External Email - Use Caution Anderson, Thanks! Mark Mark Wagshul, PhD Associate Professor Gruss Magnetic Resonance Research Center Albert Einstein College of Medicine Bronx, NY 10461 Ph: 718-430-4011 FAX: 718-430-3399 Email: mark.wags...@einstein.yu.edu

Re: [Freesurfer] Fwd: eTIV and brainmask mismatch on Philips data

External Email - Use Caution Dear Doug, I uploaded the data by ftp in Windows 10. I hope You can see a tar file. The file's name is HTN_Con_096 and it contains the subject's folder after recon_all. Do You need any other data? All the best Agnieszka pon., 29 lip 2019 o 22:44 Greve,