[Freesurfer] request for move through slices

Dear FS experts, I am trying out freeview and am extremely fond of it. I have one feature request. In tkmedit in navigate mode it was possible moving through slices just using the mouse (middle mouse button pressed). Is it possible to implement the same in freeview - it appears that in

[Freesurfer] transforms/talairach_with_skull.lta during autorecon1 and autorecon2 - is it a bug or a feature

Dear Freesurfer experts, we are testing a grid computer infrastructure for running freesurfer analysis and are evaluating consistency and reliability of freesurfer results across platforms. Before we start our tests across platforms we conducted some freesurfer analysis on the same computer and

[Freesurfer] change overlay color

Hi FS experts, I want to change the visualization of some overlay data in tkmedit. Instead of the Heat (Red-Yellow) Color-Scale I'd like to use a Green-Red or Rainbow Color Scale. Is there a way to achieve this? Do I need to create a respective LUT and where do I have to put it. thanks,

[Freesurfer] Overlay Thickness Files in tkmedit

Hi, is there a way to visualize the lh.thickness or rh.thickness files as an overlay in tkmedit. Thanks, Michael ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information

[Freesurfer] manual entry for mri_concat

Dear FS experts, I recognized that there is no manual entry for mri_concat and fslcalc.fsl. Although there is an extensive help text just typing the command I would find a manual entry (man mri_concat) including exmaples very helpful (or an entry on the freesurfer command site). Thanks,

[Freesurfer] Fwd: advise on generating individual standard deviation map

: From: Michael Scheel scheelmich...@googlemail.com Date: 10. Juni 2010 22:45:10 MESZ To: Doug Greve gr...@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] advise on generating individual standard deviation map Hi Doug, thanks for you reply. That is exactly what I want to do so many thanks

[Freesurfer] advise on generating individual standard deviation map

Dear FS experts, could someone advise on how to create from an individual thickness file (?h.thickness) a standard deviation or z-score map of the thickness with respect to a control group. Thanks, Michael ___ Freesurfer mailing list

[Freesurfer] standard deviation map

Dear FS experts, I have a anatomical scan of a subject with a rare neurogenetical disorder. I'd like to compare this with a age matched control group. How can I visualize a z-score transform map of the cortical thickness, i.e. how would I compute and vizualize the number/amount of standard

[Freesurfer] rerun auto-recon on error output

Hi freesurfer-experts, I was running the recon-all script and did get some errors due to a missing vtk and x-windows libraries. The output that was created seems fine though, just some files are missing. I was wondering if there is way to rerun the analysis, but only the parts that exited

[Freesurfer] building from source

Hi everybody, I have the opportunity to run my analysis with freesurfer on a big computer-cluster that is running on AIX. However to install freesurfer there I need to build it from source. Is the source code available? I found some older entries in the archives and the issue seemed at