[Freesurfer] PhD position available in Bern

ur CV, cover letter and references if you are interested. All best wishes Martina Papmeyer -- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. ___ Freesurfer mailing list Frees

[Freesurfer] Repeated measures of one group analysis question

Dear FreeSurfer experts I have a question regarding the correct data analysis method for my study design and could unfortunately not find an example of a similar analysis on your mailing list or documentation on the wiki. I have repeated structural MRI data from one group (within-subjects design)

Re: [Freesurfer] lme model for within-subjects repeated measures design

think >> that I read that this is not suitable if you only have two groups (in my >> case: conditions). >> >> Thank you very much for help and advice! >> >> All best wishes, Martina >> >> >> >> >> Universitäre Psych

[Freesurfer] recon-all steps specified into volume and surface based stream?

Dear FreeSurfer experts, I was wondering if there is anywhere a table or hint, suggesting which particular steps of all the recon-all steps (i.e. https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllDevTable) are part of the volume-based or the surface-based stream or both? I also found this

[Freesurfer] Desikan-Killiany atlas - ideal for all age ranges?

Dear FreeSurfer experts I have one question regarding the labeling of cortical structures using the Desikan-Killiany atlas and couldn't find any information in the archives. As far as I read, this atlas has been composed by including 40 subjects of broad age ranges (19-86 years of age), with

Re: [Freesurfer] Desikan-Killiany atlas - ideal for all age ranges?

e use the geometry of the gray/white boundary to drive > the registration and segmentation, and it is completely invariant to gray > matter atrophy and it would take huge amounts of white matter atrophy to > cahnge it enough to mess things up. > > cheers > Bruce > On Tue, 11 Nov

[Freesurfer] what does the tk stand for in tksurfer?

Hello, I have a very simple question but couldn't find an answer yet. What does the "tk" actually stand for in tksurfer and tkmedit? Many thanks for this info, Martina -- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. ___

[Freesurfer] extract and display several labels using mri_extract_label?

Hello everyone, I guess that this might be a simple question but I couldn't find an answer to my problem yet. I would like to extract and visualize four labels from my aseg.mgz file for illustration purposes. I tried the following: mri_extract_label aseg.mgz 17 18 53 54 filename.mgz (the va

Re: [Freesurfer] extract and display several labels using mri_extract_label?

her suggestions? Many thanks, Martina Quoting Bruce Fischl on Thu, 24 May 2012 08:53:14 -0400 (EDT): > Hi Martina > you can use mri_binarize --match 17 --match 18... to do this. > > cheers > Bruce > > > > On Thu, 24 May 2012, Martina Papmeyer wrote: > >> Hello

Re: [Freesurfer] extract and display several labels using mri_extract_label?

lls to mri_binarize specifying only one label. > doug > > > > On 05/24/2012 10:38 AM, Martina Papmeyer wrote: >> Thanks for your help, Bruce! >> >> Unfortunately, this also leads to a mgz.file where hippocampus and >> amygdala are "merged" together so that

Re: [Freesurfer] extract and display several labels using mri_extract_label?

mgz > > doug > > On 05/24/2012 10:45 AM, Martina Papmeyer wrote: >> Hi Doug, >> >> thanks for your help. >> I need a file with four segmentations being displayed (as outlined >> below: left/right amygdala and left/right hippocampus). I know how >