In case you want to use MEDx to generate the mask here is how you would do
this:
1. Use the pencil tool to draw the ROIs on the various slices.
2. Go to Graphic -> Select All -> 2D Graphics
3. Go to Graphic -> Grouping -> Derive 3D Contour
3. Go to Graphic -> Graphic Region -> Erase Outside Region
4. With the graphic(contour) still selected go to the Image Calculator, type
in 1 and click on Ok. All values inside the graphic will be set to 1
effectively creating your mask.
5. You can now delete the graphic and use the Save Image option to save out
the mask as Analyze.
Regards...Raj
*********************************************
Raj Jagannathan
Sensor Systems Medical Products
103A Carpenter Drive
Sterling, VA 20164
(703) 437-7344 x418
(703) 437-0039 fax
[log in to unmask]
http://medx.sensor.com
*********************************************
>-----Original Message-----
>From: Donna [mailto:[log in to unmask]]
>Sent: Friday, February 14, 2003 5:29 AM
>To: [log in to unmask]
>Subject: Re: [FSL] Featquery and mask
>
>
>--------------- reply ----------------
>> > Can I make a graphic in MEDx
>> > and save it, or how do you all make the binary image? (I'm used
>to NIH
>> > Image.)
>>
>> I haven't done it with Medx but any tool that will let you draw an
>ROI
>> and save it as an analyze image will work. I tend to use MRIcro
>> (www.mricro.com) which is free, easy to use, and handy for all osrts
>of
>> things, in my experience. You can load a structural, and then
>simply draw
>> an ROI onto the image based on the underlying anatomy. Then save
>the ROI
>> as an analyze image and it will save it with binary values.
>
>ok that sounds a lot easier than trying to do it with MEDx. similar
>principle, use the 2D pen tool to draw around your region then you
>need to go to graphics and erase outside of region, then select all 2D
>graphics and finally group them. transform into the appropriate space
>you want to work in then use the thresholding option in MEDx to
>finally binarise.
>
>i think that's right, its been a while since i did this but it might
>be easier to do what joe suggested.
>
>cheers,
>
>Donna
>
>
>
>
>>
>> Good luck.
>> Joe
>>
>Donna M. Lloyd
>Research Assistant
>Magnetic Resonance and Image Analysis Research Centre (MARIARC)
>University of Liverpool
>Pembroke Place
>Liverpool
>L69 3BX
>U.K
>
>Tel No. 44-151-794-5634
>Fax No. 44-151-794-5635
>
>
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