On 09/20/2006 12:17 PM, Jason D Connolly wrote:
Thank you for your help in the past.
We are currently trying to draw an ROI (or a mask) around activated
regions on the flat map (and hopefully save these ROIs in *.cub format)
to then select region-specific event-related timecourses via a matlab
Can you give me any assistance regarding exactly how to go about drawing
and saving such an ROI (and saving these as enclosed 'masks' in a *.cub
format or something very similar)?
Any help would be greatly appreciated.
Best regards, Jason.
Jason D. Connolly, PhD
Center for Neural Science, New York University
6 Washington Place Room 875, New York, NY 10003
cell:646.417.2937 lab:212.998.8347 fax:212.995.4562
... and later on 09/20/2006 12:32 PM, Jason D Connolly wrote:
Also, a related question is how does one reverse project these saved
flattened map ROIs back onto the 3D functional MRI datasets, i.e. in .cub
Sorry, but I've never heard of *.cub format before. But maybe you can
get to *.cub from one of our other output file formats.
Maybe try something like this:
1. Use Layers: Draw Borders, type Closed, Assign Voxels to Within
Closed Border to draw the ROI region.
2. Project the borders and save as a borderproj file, even if your main
interest is in the paint file.
3. If desired, save the border as a border file -- relative to the
fiducial surface, to get an ASCII list of border point coordinates.
4. Attributes: Paint: Convert Paint Column to Paint Volume.
5. File: Save Data File: Volume Files: AFNI, NIFTI, or SPM and MEDx
(really Analyze). Change volume type to Paint. I vaguely recall that
the paint type may only be available for AFNI and WUNIL 4dfp output
types, but give it a shot.
The AFNI .BRIK file is just like an Analyze .img (i.e., the raw data
with no header), so perhaps you can import it into *.cub.
Donna L. Dierker
(Formerly Donna Hanlon; no change in marital status -- see
http://home.att.net/~donna.hanlon for details.)