[Freesurfer] hippocampal subfields error

External Email - Use Caution Hi all, I'm doing hippocampal subfields analysis with freesurfer 6.0 with T1 and high resolution T2 data from a 7T MRT. With at least one of my datasets Matlab throws an error during the hippocampal-subfields-T2 -pipeline: Making Unknown map to redu

Re: [Freesurfer] Fwd: freesurfer picture

External Email - Use Caution *Hi Bruce* *I want to compare the relationship between age and thickness, which is controlled the effect about sex,education and eTIV. I want to get more beautiful pictures, but the ability of QDEC is limited.* *I have tried freeview, but I don't know w

[Freesurfer] (no subject)

External Email - Use Caution Post-doc position for MRI-research on dementia and normal aging available at Karolinska institute. We are looking for a Post-doc researcher for a 1-year scholarship (with a possibility for an extension to 2-year) at our section at the NVS-department at

Re: [Freesurfer] Fwd: freesurfer picture

Hi Abby HBM has slowed down our response time. If you don't gte an answer by next week can you repost? cheers Bruce On Mon, 17 Jun 2019, Abby tang wrote: External Email - Use Caution Hi BruceI want to compare the relationship between age and thickness, which is controlled

Re: [Freesurfer] hippocampal subfields error

External Email - Use Caution Dear Angelika, Can you please send us a screenshot of the inaccurate T1 segmentation? Cheers, /Eugenio -- Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com From: on behalf of "Mennecke, Ang

Re: [Freesurfer] hippocampal subfields error

External Email - Use Caution OK yes this is a problem with the main recon-all stream. It’d have been a miracle for the subfield module to recover from that… At this point, I’ll defer to Doug / Bruce. Cheers, /E -- Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS)

Re: [Freesurfer] hippocampal subfields error

hmmm, that is strange. Can you tar and gzip the entire subject dir then upload it to our ftp site? On Mon, 17 Jun 2019, Iglesias Gonzalez, Eugenio wrote: External Email - Use Caution OK yes this is a problem with the main recon-all stream. It’d have been a miracle for the

[Freesurfer] Aligning structural and fMRI data

External Email - Use Caution Dear whom it may concern, I have a structural image (orig.mgz) that has 256 * 256 * 256 dimension, c_r: 0 c_a: 0 c_s:0, and a functional file that has 64*58 * 48* 200, c_r = -0, c_a = 11.9, c_s = 2.7. Two files have different start and end time, too

Re: [Freesurfer] running recon -all and trac -all from different FreeSurfer home

Do things not work if you leave it as bedpostx_mgh? From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Costanza Gianni' Sent: Wednesday, June 12, 2019 8:28:28 AM To: Freesurfer support list Subject: Re: [Freesurfer] running recon -all and trac -all from

[Freesurfer] Smoothing the pill surface

Hello FreeSurfer users/developers, I want to generate a smooth pial surface similar to the one displayed on the LGI page (https://surfer.nmr.mgh.harvard.edu/fswiki/LGI) without having to run the entire recon-all process. Additionally, I want to map this surface to the white surface. Is there an