Re: [Freesurfer] Freeview overlay, positive values only

2017-06-03 Thread Rita Elena Loiotile
Hi Ruopeng, Thanks for the suggestion. I tried this but freesurfer complained "Unrecognized sub-option flag 'overlay_color'." Perhaps you have a more recent version of freesurfer/freeview? I'm currently running the following: freesurfer-x86_64-unknown-linux-gnu-stable5-20130513 with Freeview ve

Re: [Freesurfer] Freeview overlay, positive values only

2017-06-03 Thread Ruopeng Wang
You can set truncate like this from command-line: freeview -f surface_filename:overlay=overlay_filename:overlay_color=truncate Best, Ruopeng > On Jun 3, 2017, at 1:03 AM, Rita Elena Loiotile wrote: > > Hi, > > Is there an easy command to only load positive values of an overlay in > Freeview.

Re: [Freesurfer] Label numbers aparc.a2009s

2017-06-03 Thread Bruce Fischl
Hi Jürgen the FreeSurferColorLUT.txt file lists all the labels that we might use, not all the ones that we do use in any given parcellation, so it will certainly have ones that are not in any single parcellation. cheers Bruce On Sat, 3 Jun 2017, Juergen Haenggi wrote: Dear FS experts I hav