[Freesurfer] automated brodmann parcellation

Hi Freesurfers, I was wondering if you have come across a method to automatically parcellate the whole brain into Brodmann areas. I know the newest freesurfer version does this for several BAs but not all BAs have been incorporated. I was wondering if anyone knows of an existing Brodmann atlas (fo

Re: [Freesurfer] automated brodmann parcellation

o the associated Brodmann area, and then use mri_vol2surf and color-coat each vertex? Best, Corey On Tue, Aug 16, 2011 at 10:17 AM, Bruce Fischl wrote: > Hi Corey, > > sorry, there is no such thing, although wouldn't it be nice if there were :) > > Bruce > On Tue, 16 Aug 2011,

[Freesurfer] func2roi average

owever, it doesn't seem to go on to say how to compute the inter-subject average. Could someone point me in the right direction? Thanks again. Best, Corey -------- Corey Keller Epilepsy Unit Clinical Research Coordinator Massachusetts General Hospital VBK 830, 55 Fruit Street B

[Freesurfer] mni or tal to brodmann's

Hi freesurfers, I am wondering if there is a function in freesurfer to convert mni or talairach coordinates to brodmann's areas. I am hoping to input my RAS coordinates, transform them to either mni or talairach (which I know how to do), and then convert to and output the brodmann area. Thanks in

[Freesurfer] RAS to talairach transform

Hi freesurfers, I am trying to convert electrode coordinates from RAS to talairach space. I have 128 electrodes sitting directly on the pial surface which was created from recon-all. I see that the output of each reconstruction has two transforms, talairach.xfm and talairach.auto.xfm. There seems

[Freesurfer] Plotting functional data on surface

Hi Freesurfers, I know this is probably an easy question, but I am having some trouble with it. I am trying to plot functional data (in nifti format) onto a pial or inflated surface in matlab. I am uring mri_vol2surf but am missing the register file. Do I find this from registering the functional

Re: [Freesurfer] Fwd: Plotting functional data on surface

ll for me). > > Thanks, > Thomas > > On Jul 2, 2010, at 9:58 AM, Corey Keller wrote: > >> Hi Bruce, >> >> Thanks for the info. I am trying to register a resting state >> functional nifti file. I ran bbregister but it was not well aligned >> (pictures are atta

Re: [Freesurfer] Fwd: Plotting functional data on surface

te volume? If so, I would suggest using the volume before the > preprocessing (which works well for me). > > Thanks, > Thomas > > On Jul 2, 2010, at 9:58 AM, Corey Keller wrote: > >> Hi Bruce, >> >> Thanks for the info. I am trying to register a resting state &g

[Freesurfer] Registration with fsaverage

Hi Freesurfers, I am trying to check the spherical alignment of an individual subject registered to fsaverage via lh.sphere.reg. I am using the following command in tksurfer: tksurfer CL lh sphere and get the error code below. Could someone let me know what I am missing here? Should I be using t

Re: [Freesurfer] Fwd: Plotting functional data on surface

of the usual gray. We are now trying to transform this functional data so that it will plot on the pial surface of the average subject, fsaverage. Any help will be much appreciated. Thanks again. -Corey On Fri, Jul 2, 2010 at 2:27 PM, Corey Keller wrote: Hi, I figured out how to plot it on my

[Freesurfer] finding closest vertex in matlab

Hi Freesurfers, I have talairach coordinates of electrodes sitting on the brain. I am hoping to use the Desikan-Killiany parcellation scheme to determine which cortical region each electrode lies closest to in standard space. I am using read_annotation in matlab to read the lh.aparc.annot file and