Re: [Freesurfer] Group mean tracer uptake images

you can use something like mri_concat overlay1.mgh overlay2.mgh --mean --o mean.overlay.mgh On 6/22/2019 4:18 PM, Boris Rauchmann wrote: > External Email - Use Caution > > Dear FS community, > > how can I create group mean tracer uptake images in surface space with FS > from several

[Freesurfer] Post-doctoral Research Position at the Yale Alzheimer's Disease Research Unit

External Email - Use Caution The Yale University Alzheimer’s Disease Research Unit and the Yale PET Center has an opening for a highly qualified and motivated individual at the post-doctoral level to work on research involving the development of analysis techniques integrating

[Freesurfer] aseg annotation2label

External Email - Use Caution Hello, I'm trying to create label files of the aparc+aseg ROIs but cannot find the aseg annotations. The ?h.aparc.annot does not contain subcortical regions that exist in the aparc+aseg.mgz volume. Is there a way to apply mri_annotation2label to aseg

Re: [Freesurfer] WARNING: no voxels in AR1 computation

This is not a problem with the contrasts, it is an issue with the mask. How did you create the mask? Can you send the full terminal output? On 6/21/2019 6:16 PM, Francesca Pentimalli wrote: External Email - Use Caution Dear FreeSurfer experts, I am trying to run mri_glmfit on a series

Re: [Freesurfer] aseg annotation2label

mri_vol2label should do the trick cheers Bruce On Sat, 22 Jun 2019, Sam W. wrote: External Email - Use Caution Hello, I'm trying to create label files of the aparc+aseg ROIs but cannot find the aseg annotations. The ?h.aparc.annot does not contain subcortical regions that

[Freesurfer] Group mean tracer uptake images

External Email - Use Caution Dear FS community, how can I create group mean tracer uptake images in surface space with FS from several overlays? Thanks, Boris Von meinem iPhone gesendet ___ Freesurfer mailing list

Re: [Freesurfer] Within-subject vertexwise correlation

I don't know. There is no way for me to answer that. It depends on the signal-to-noise of each of the modalities. You'll probably have to experiment a bit On 6/22/2019 8:08 AM, Matthieu Vanhoutte wrote: External Email - Use Caution I effectively smoothed both modalities the same

Re: [Freesurfer] Within-subject vertexwise correlation

External Email - Use Caution I effectively smoothed both modalities the same amount. The question is whether I should or not smooth before calculating within-subject correlation? Best, Matthieu Le sam. 22 juin 2019 à 02:14, Greve, Douglas N.,Ph.D. < dgr...@mgh.harvard.edu> a

Re: [Freesurfer] Advantage of having skull for longitudinal processing?

Hi Adam, the longitudinal registration should not care, but the regular stream would like to have the skull in the image. This will help for a couple steps (full head talairach registration -> eTIV etc). Best, Martin > On 5. Jun 2019, at 03:57, Adam Martersteck wrote: > >

Re: [Freesurfer] Applying Pial edits to Longitudinal

Hi Sierra, the long command should be recon-all -long C002d C002.base -mprage ….. same way as you called it the first time when using the -all flag. Best, Martin > On 8. Jun 2019, at 20:28, Sierra Ann Jarvis wrote: > > External Email - Use Caution > > > Hello

[Freesurfer] unable to create symbolic link, and GPU error

External Email - Use Caution Hi, I am testing a new installation of freesurfer. Two errors occurred, and I'm hoping someone can help me troubleshoot: First, recon-all exits with error indicating that it is unable to create a symbolic link: [GHS\026278@vmcntdsktp10 fs_sample1]$

[Freesurfer] question for preprocessing

External Email - Use Caution Dear expert， Thank you for reading! I want to do these four pre-processing steps: 1. Re-sampling each MR image to 256*256*256; 2. Using the N3 algorithm for intensity inhomogeneity correction; 3. Skull stripping; 4. Removing the cerebellum. Does