[Freesurfer] Setup and configuration problem ubuntu 12.04.LTS

Hello, i'm trying to setup freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0. I think i've done downloading properly but i'm having some trouble with installation. I can set up enviroment and when testing freesurfer with some of the scripts from the page, sometimes it works but sometimes i get an

[Freesurfer] Question regarding wm output

Hello! I'm a begginer user with this programm and i need some help, please! I was wondering if it's possible to get an output only for WM segmentation but excluding the filling in of CSF and/or hyperintensities? And if so, would it be possible to convert this to nii ? Thank you! Ale _

[Freesurfer] recon-all.log error: "_FindFacePath: could not find path!"

Hi, i'm a novel freesurfer user and i'm afraid i need some help here, please! - FREESURFER_HOME: /usr/local/freesurfer-5.1 Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0

[Freesurfer] labelled tissue segmentation mask back to native

Hello, I was wondering if FS has an output mask (labelled volume) for each tissue types (gm+wm+venctricular_csf) that I can then turn into each subject's native space. I understand I can use aseg.mgz or even aparc+aseg.mgz and then run mri_label2vol. But then how do I get correspondent labelling f

Re: [Freesurfer] labelled tissue segmentation mask back to native

thank you Bruce and Douglas for your reply! Alejandra 2014-08-20 13:07 GMT+02:00 Alejandra Machado : > Hello, > > I was wondering if FS has an output mask (labelled volume) for each tissue > types (gm+wm+venctricular_csf) that I can then turn into each subject's > native s