Re: [Freesurfer] Cortical Parcellations in individual space using Yeo et al 2011

2018-10-24 Thread Thomas Yeo
External Email - Use Caution Hi Emma, I know it's been a long time, but my RA recently explored this and we think that mri_aparc2aseg might be a better option that mri_label2vol. Anyway, here's the updated process for mapping the Yeo2011 networks from fsaverage5 to individual

Re: [Freesurfer] Yeo 2011 Functional Cortical Parcellations

2018-10-24 Thread Thomas Yeo
External Email - Use Caution Hi Bronwyn, I know it's been a long time, but my RA recently explored this and we think that mri_aparc2aseg might be a better option that mri_label2vol. Anyway, here's the updated process for mapping the Yeo2011 networks from fsaverage5 to individual

[Freesurfer] Paired Analysis Contrasts

2018-10-24 Thread srishti goel
External Email - Use Caution Hello, I am trying to perform a paired analysis for a data set that has subjects' who belong to either group1 or group2 and have data at time point1 (tp1) and time point2 (tp2). I am following all the steps on the wiki but I want to clarify if the

Re: [Freesurfer] Is the cortical thickness calculated using Hausdorff distance in FreeSurfer?

2018-10-24 Thread Bruce Fischl
Hi Zhiliang Hausdorff distance is typically computed between two sets (the max of the min distances). For thickness we compute the closest point from one surface to the other (e.g. white to pial) and the reverse, then average them. cheers Bruce On Tue, 23 Oct 2018, Zhiliang Long wrote:

[Freesurfer] freeview error

2018-10-24 Thread zhac looch
External Email - Use Caution Hello freesurfer team, How can ı fix the problem? Ubuntu-brain:~$ freeview Could not set locale No such file or directory This application failed to start because it could not find or load the Qt platform plugin "xcb" in "". Reinstalling the

[Freesurfer] 5th ventricle in version 6

2018-10-24 Thread Keedy, Sarah [PSY]
External Email - Use Caution I’m comparing output of Freesurfer5.2 to 6 on the same set of brains. The “5th ventricle” (Cavum septum pellucidum) is not being detected by 6. I had eyeballed the output from 5.2 and convinced myself it was reasonably well detecting this