[Freesurfer] Using the "Smooth Surface" tool in Freeview

2017-02-06 Thread Huang, Caleb (NIH/NINDS) [F]
Hi, I'm new to Freesurfer and am still figuring out the ins and outs of cortical reconstructions. One option I've been looking into is the "Smooth Surface" tool in Freeview. It seems to make it easier to identify handles and other errors especially in subjects with significant atrophy, but I'm

[Freesurfer] (no subject)

2017-05-25 Thread Huang, Caleb (NIH/NINDS) [F]
Hi all, I'm trying to figure out a way to do create seed-based structural covariance networks through Freesurfer like the one shown in the link below. From the images, it looks like it's done through QDEC. Any tips how to get started? https://ww5.aievolution.com/hbm1601/index.cfm?do=abs.viewAbs

[Freesurfer] Appropriate number of control points

2017-08-22 Thread Huang, Caleb (NIH/NINDS) [F]
Hi Freesurfer experts, A co-worker and I are having some issues figuring out a consistent Freesurfer editing protocol. How many control points are generally needed for a T1 scan of fair quality? Would there be a problem with consistency if one set of subjects has 10-80 control points and anoth

[Freesurfer] QDEC FDR for left and right hemispheres

2017-09-12 Thread Huang, Caleb (NIH/NINDS) [F]
Hello, When I run FDR on QDEC, I get different p-values for the left and right hemispheres. Is it appropriate to use just one threshold for the sake of consistency? Also, as an unrelated question, is there a way to display the thresholds as p-values rather than log(p)? -Caleb _

[Freesurfer] Longitudinal increase in thickness/volume

2017-09-21 Thread Huang, Caleb (NIH/NINDS) [F]
Hello, I'm tracking atrophy in the precentral region. I've run the subjects through the longitudinal stream. Because of time constraints, I've mostly focused on editing the precentral regions as well as any significant errors outside of the region. I've observed increases in thickness of up to