Re: [Freesurfer] Appropriate image for texture/intensity based analysis

2024-11-14 Thread Sandhitsu Das
there further processing that would affect the intensity distributions ? On Tue, Nov 12, 2024 at 11:02 AM Douglas N. Greve wrote: > I would recommend the norm.mgz as it should be scaled so that the WM is > 110 and bias fields would have been (mostly) removed. > > > On 11/12/2024 12:0

[Freesurfer] Systematic difference in volume between baseline and longitudinal pipelines

2024-11-12 Thread Sandhitsu Das
External Email - Use Caution It seems the original posting did not go through likely because it had an attachment. Here it is again. I have seen some threads from a few years ago discussing differences in thickness, and we see this in volume as well (v6). I had an attached plot fo

[Freesurfer] Appropriate image for texture/intensity based analysis

2024-11-11 Thread Sandhitsu Das
External Email - Use Caution We want to perform appearance-based analysis that also takes advantage of automated outputs, especially segmentations. For this, we have considered different options: raw image, orig.mgz, norm.mgz, T1.mgz, in addition to whether to use base or long pipe