[caret-users] Projection foci

[Alex Fornito]

Hi,
Yeah, in Cambridge on a post-doc fellowship.
I've uploaded the file.
There seems to be a an option to set the space on the 'Studies' tab of the
map stereotaxtic focus window, but I couldn't quite figure out it works.
Thanks for your help,
A


On 14/01/2009 21:56, "Donna Dierker" <donna at brainvis.wustl.edu> wrote:

> Alex,
> 
> Can you upload the foci file (or fociproj) here:
> 
> http://pulvinar.wustl.edu/cgi-bin/upload.cgi
> 
> To project them to the PALS atlas (as opposed to your own subject's
> surface), Caret does need to know which of the surfaces in the Caret
> data_files/fmri_mapping_files directory represents the best fit:
> 
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_711-2C.clean.align.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_AFNI.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_FLIRT.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_MRITOTAL.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_SPM2.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_SPM5.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_SPM95.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_SPM96.clean.73730.coord
> Human.PALS_B12.LEFT_AVG_B1-12.FIDUCIAL_SPM99.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_711-2C.clean.align.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_AFNI.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_FLIRT.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_MRITOTAL.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_SPM2.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_SPM5.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_SPM95.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_SPM96.clean.73730.coord
> Human.PALS_B12.RIGHT_AVG_B1-12.FIDUCIAL_SPM99.clean.73730.coord
> 
> I'm pretty sure this is an entry on the Map stereotaxic focus dialog,
> but there are many fields on that dialog.
> 
> So you're in Cambridge now, eh?  Weren't you in Melbourne a while back?
> 
> Donna
> 
> On 01/14/2009 03:48 PM, Alex Fornito wrote:
>> Hi,
>> I entered a few stereotactic foci manually and saved the .foci, .fociproj,
>> and .focicolor files.
>> When I opened Caret up again and re-loaded the spec file, I was unable to
>> view the foci on the surface. I can see them in the foci windows of the
>> display control, but if I select Layers > foci > Foci projection to PALS
>> atlas, I get a message saying "These foci do not have associated stereotaxic
>> spaces: ..."
>> I was wondering whether it is possible to visualize the foci again, without
>> entering them all again.
>> 
>> Thanks,
>> Alex
>> 
>> 
>> 
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>>   
> 
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-- 

Alex Fornito
CJ Martin Post-Doctoral Fellow
Brain Mapping Unit
Department of Psychiatry
University of Cambridge
Downing Site
Downing St, Cambridge
UK CB2 3EB

Email:    af397 at cam.ac.uk
Phone:    +44 (0) 1223 764670
Fax:        +44 (0) 1223 336581

Australian Details:

Melbourne Neuropsychiatry Centre
National Neuroscience Facility
Levels 1 & 2, Alan Gilbert Building
161 Barry St 
Carlton South 3053
Victoria, Australia

Email:    fornitoa at unimelb.edu.au
Phone:    +61 3 8344 1861
Fax:        +61 3 9348 0469