Re: [Freesurfer] Masks in mri_segstats

Only one mask and one threshold is used. If you need to combine masks in some way, you can use fscalc (or mri_binarize). On 3/5/19 12:47 PM, Zhi Li wrote: > > External Email - Use Caution > > Hello Freesurfer experts, > > I would like to use mri_segstats with two different masks and >

[Freesurfer] Masks in mri_segstats

External Email - Use Caution Hello Freesurfer experts, I would like to use mri_segstats with two different masks and thresholds, such as: mri_segstats --mask mask1 --maskthresh thresh1 --mask mask2 --maskthresh thresh2 This command can run smoothly with our any error. However, I

Re: [Freesurfer] freesurfer masks for fsl processed data

Just run recon-all on the mni brain On 05/02/2018 07:12 PM, Rongxiang Tang wrote: > > Dear All, > > I ran fsl feat on my functional data and have all my data transformed > into standard MNI space. However, I would like to use freesurfer > generated white matter parcellation (wmparc.mgz) to extr

[Freesurfer] freesurfer masks for fsl processed data

External Email - Use Caution Dear All, I ran fsl feat on my functional data and have all my data transformed into standard MNI space. However, I would like to use freesurfer generated white matter parcellation (wmparc.mgz) to extract white matter signals from my MNI space functi

[Freesurfer] Masks on tksurfer

Hi list, I would like to make a mask of a significant cluster after FDR correction on sig.mgz (FS-FAST analysis). I'm using tksurfer and its options (custom fill, new label from marked) but I have some difficulties to save the mask. Could you suggest me a reference/guide page, please? Thanks S

Re: [Freesurfer] Masks based on 10-20 locations of stimulating electrodes

Hi Tudor I guess the easiest thing to do would be to read the surface and the electrode coords into matlab and just do an exhaustive search for the vertex that has the closest MNI coord to each electrode. cheers Bruce On Thu, 4 Sep 2014, Tudor Popescu wrote: > Dear FS team, > > I have struct

[Freesurfer] Masks based on 10-20 locations of stimulating electrodes

Dear FS team, I have structural data from a training study involving different tDCS groups. I would like to define ROIs (masks) in MNI space corresponding to the approximate cortical area underlying the tDCS electrodes, which were placed on F3&F4 for one group and on P3&P4 in another group (10-20

[Freesurfer] masks from fsaverage label into Group FSL Feat

Hi Freesurfers, I've done a group feat analysis in FSL and I'd like to do an ROI analysis of V1/V2. I've also done recon-all on all my subjects. How would one generate the V1 and V2 binary masks from the fsaverage brain and then register it to the common MNI-152 brain used for the group feat analys

Re: [Freesurfer] Masks

Hi Christian, I'm sure it's possible, but you might want to check with the brainvoyager people, unless someone on the list knows what their coordinate conventions are cheers Bruce On Tue, 25 Jan 2011, Oertel, Viola wrote: Dear Freesurfer-user, I have a general question: if I created a activ

[Freesurfer] Masks

Dear Freesurfer-user, I have a general question: if I created a activation mask during a fMRI task with Brainvoyager software, which works with talairach space. Is it possible, and do you know how, to transform the Talairach space mask into the Freesurfer analysis? Thanks, Christian Dr. Vi