Re: [Freesurfer] Help in Qdec

2009-09-15 Thread Pedro Paulo de Magalhães Oliveira Junior
Answers bellow 2009/9/15 Gergely Orsi gergo.o...@gmail.com 1, I'd like to know what Curv does stand for? Because We have a highly significant difference in Curv among our groups unilaterally. Curv is the curvature of the surface, afaik. 2. Is it possible to list the total brain volume

[Freesurfer] errors

2009-09-15 Thread Zhangyuanchao
Dear experts,   I have some data of format .dc3, I would like to calculate the cortical thickenss of the data. I launched the command recon-all -i subjectname/***.dc3 -s subjectname, In addition, I also tried recon-all -i ** -force, For some of the subjects, It runs without error, while for

Re: [Freesurfer] selecting the best structural scan

2009-09-15 Thread sima chalavi
Dear Bruce, Thanks so much for your email, I ran mris_euler_number and mri_cnr (see attachment) according to your advice, it is already clear for us to remove G02 because of having too small Euler number. It is also clear that for this particular scanner the G05_H_11 sequence is the best. For

Re: [Freesurfer] selecting the best structural scan

2009-09-15 Thread Bruce Fischl
Hi Sima, you should also make sure that the surfaces are visually accurate (that is, the white and pial surfaces lie at the true boundaries). If that's the case then either 03 or one of the 05s is the next best. For the distributions, you can use the aparc+aseg.mgz to extract the correct

[Freesurfer] Editing labels - How to get the altered structures volumes?

2009-09-15 Thread Amorim, Edilberto
Dear freesurfers, Foremost, I want to thank all the fellows freesurfeers that help us out in the mailing list. This is an amazing support. I'm a beginner working with FreeSurfer - your help is very appreciated. I've also searched in the e-mail list archives, but did not find the answer to my

Re: [Freesurfer] errors

2009-09-15 Thread Douglas N Greve
what kind of file is it? where did it come from? Zhangyuanchao wrote: Dear experts, I have some data of format .dc3, I would like to calculate the cortical thickenss of the data. I launched the command recon-all -i subjectname/***.dc3 -s subjectname, In addition, I also tried recon-all

Re: [Freesurfer] Editing labels - How to get the altered structures volumes?

2009-09-15 Thread Douglas N Greve
Easiest to save the annotation under a different name, then run mris_anatomical_stats -mgz -f stats/lh.new.aparc.stats -b -a label/lh.new.aparc.annot subjectname doug Amorim, Edilberto wrote: Dear freesurfers, Foremost, I want to thank all the fellows freesurfeers that help us out in

[Freesurfer] FreeSurfer course in September

2009-09-15 Thread Pedro Paulo de Magalhaes Oliveira Jr
One suggestion that may be useful for the FS Users: You could record the course in video and share some classes using YouTUBE Cheers PPJ Enviado do meu celular Nokia ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu