[Freesurfer] How to flatten time course on the cortex

Hi FreeSurfer Users, I am new to the Freesurfer, I have a question regarding mapping of the resting state fMRI time courses on the cortex area. I apologise in case my question is naive. please bear with me: Is it possible to have time-courses sampled from cortex? I mean how can I get

Re: [Freesurfer] How to flatten time course on the cortex

You should register the fMRI to the anatomical with bbregister. Run it with --help for more info, also see the wiki tutorial on fMRI integration. You can then sample the time series to the surface with mri_vol2surf doug On 4/1/12 1:52 PM, Kaveh Kohan wrote: Hi FreeSurfer Users, I am new to

[Freesurfer] mapping bow-tie retinotopy

Dear freesurfers, I am wondering whether there is a simple way of analysing retinotopy data that was collected using a rotating bow-tie stimulus? Or should I somehow artificially segment the cycle into different visual field poition conditions and run a glm analysis? I just realised I have made

[Freesurfer] coreg error

Hey guys, When i run mri_convert to get ct.mgz, everything runs, and i get a ct.mgz file. but when i use spmregister, it says that spm.reg.dat is unrecognizable. How can i remedy this? Thanks so much! Mia ___ Freesurfer mailing list

Re: [Freesurfer] coreg error

Hi Mia, we'll need more info on what you did. Please send the command(s) line you used and the terminal output(s). doug On 4/1/12 10:59 PM, Borzello, Mia wrote: Hey guys, When i run mri_convert to get ct.mgz, everything runs, and i get a ct.mgz file. but when i use spmregister, it says that

Re: [Freesurfer] Tracula Siemens DTI

Hi Gabor - If you provide the DWI dicoms directly, tracula uses mri_convert to convert them to nifti, and mri_convert doesn't read directions from the header, it looks them up from: $FREESURFER_HOME/diffusion/mgh-dti-seqpack/ This should be fine assuming you use the same standard