Upload a zip file containing the script (or just email commands used) and the inputs (surface or segmentation) here:
http://brainvis.wustl.edu/cgi-bin/upload.cgi I'll have a look. On Jan 5, 2016, at 12:31 AM, Rosita Shishegar <r.shishe...@student.unimelb.edu.au> wrote: > Hi Donna and all caret users, > > Happy new year! > > Before, I asked about computing sulcal depth from the cortical surface. Donna > suggested that I use gen_depth.sh file as a guide. > > Using the commands, first I tried to create the volume from the surface which > later I needed for computing hull and the sulcal depth. Later, I ran caret > command SURFACE IDENTIFY SULCI using the previous step output but I get an > error saying cerebral hull VTK file has no points. > > I think I do not create segmentation volume properly because when visualizing > the volume (output_volume.nii file created using SURFACE TO SEGMENTATION > VOLUME), it includes just few voxels in a raw. > > Any help would be greatly appreciated. > > Thanks, > Rosita > > > On Thu, Sep 3, 2015 at 12:36 PM, Donna Dierker <donna.dier...@sbcglobal.net> > wrote: > Hi Rosita, > > This zip archive has a script named gen_depth.sh: > > brainmap.wustl.edu/pub/donna/US/UCDAVIS/cwn.zip > login pub > password download > > You'll need to adapt it to your data, but it will give you a head start. > > Donna > > > On Sep 2, 2015, at 7:01 PM, Rosita Shishegar > <r.shishe...@student.unimelb.edu.au> wrote: > > > Hi, > > > > > > I am a new Caret user and I am working on animal brain data, which are > > manually segmented and triangulated mesh of cortical surface is already > > extracted and pre-processed. > > > > > > > > I want to measure Sulcal Depth of theses brains and so I need to generate > > Cerebral Hull surface of them. Is there any way to compute the Cerebral > > Hull using Caret from cortical surface rather than the volume? > > > > > > Thanks, > > > > Rosita > > > > > > > > > > _______________________________________________ > > caret-users mailing list > > caret-users@brainvis.wustl.edu > > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > > -- > Rosita Shishegar > PhD Candidate > Neuroimaging Group > University of Melbourne > Parkville, VIC 3010 > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://brainvis.wustl.edu/mailman/listinfo/caret-users _______________________________________________ caret-users mailing list caret-users@brainvis.wustl.edu http://brainvis.wustl.edu/mailman/listinfo/caret-users
