Re: [Freesurfer] extracting fMRI timecourses that are in FreeSurferColorLUT.txt but aren't in the automatically transferred parcellation/ segmentation

; it depends which ones you mean. Thalamus we label in the aseg.mgz, > although for some reason the CMA called it "thalamus proper" so that is the > index you should use (10 instead of 9 for left). What other labels do you > mean? > > Bruce > > > On Wed, 29 Nov 201

Re: [Freesurfer] extracting fMRI timecourses that are in FreeSurferColorLUT.txt but aren't in the automatically transferred parcellation/ segmentation

, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Jessica > > not sure I understand, but I don't think so. If we didn't label it in the > aseg/aparc/label dir then how would you find it? Or do you mean manually > draw it? That is possible. > > Bruce > > On Wed,

Re: [Freesurfer] extracting fMRI timecourses that are in FreeSurferColorLUT.txt but aren't in the automatically transferred parcellation/ segmentation

have a binary volume > at 1mm3 with the lh BA6 -- view this to make sure it is right. Then use > fcseed-config to configure this seed, specifying -segid 1 and -seg > NameOfSeg.mgz > > where NameOfSeg.mgz is the output of the mri_label2vol above > > > On 11/28/2017 05:

[Freesurfer] extracting fMRI timecourses that are in FreeSurferColorLUT.txt but aren't in the automatically transferred parcellation/ segmentation

Hi Freesurfer Experts, I've been looking to extract the timecourses of a couple regions of interest from fMRI data that's be registered against anatomical data. I've used commands such as recon-all and preproc-sess on all subjects. I've already used command fcseed-sess to extract timecourses

Re: [Freesurfer] error with fcseed-config & fcseed-sess

fsaverage \ --srclabel fsaverage/label/lh.BA45.label \ --trgsubject 004 \ --trglabel 004/label/lh.BA45.label \ --hemi lh \ --regmethod surface On Thu, Jul 27, 2017 at 10:37 AM, Jessica Huang < jessica_hu...@college.harvard.edu> wrote: > Hi Dr. Greeve, > > Oh I see, thank

Re: [Freesurfer] error with fcseed-config & fcseed-sess

, 2017 5:37 PM, "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> wrote: > By default, you are using aparc+aseg.mgz as the ROI atlas, so use 1021 > or 2021 for V1. > > 1021ctx-lh-pericalcarine120 100 60 0 > > > On 07/26/2017 12:37 PM, Jessica Huang

[Freesurfer] error with fcseed-config & fcseed-sess

Hi freesurfer experts, I’m using the fcseed-config and fcseed-sess commands to create a seed at V1 in accordance with the FsFastFunctionalConnectivity Walkthrough Steps: *STEP 4: Use fcseed-config to configure the