<pre>Aloha DTI experts,<br><br>I wanted to create a skull stripped image in ROIEditor. I remember reading instructions on it a couple months ago where it said to use intensity thresholding and growing. It was a bit more manual. I see the following message sent on May 20. I wanted to do it the more manual way though. I looked all over the website, but can not find those instructions again. If anyone remembers what I'm referring to, could they please send me the link to where those instructions disappeared to?<br>
<br>Thank you very much,<br>Jeff Sadino<br><br>Open ROIEditor<br>Click folder icon (under File on top toolbar); choose b0 (change parameters<br>according to your image dimensions/type)<br>1. Scroll down; under TOOL, click button with oval icon (Skull<br>
Stripping; last button on right)<br>1. Choose Skull strip the current archive image only.¹; click OK<br>2. Change Segment Downsample (1,2,or 3) to 1; click OK<br>Under IMAGE, click folder icon (Load Image File); choose FA.dat (same image<br>
parameters as b0)<br>Under ROI, click icon with +/-/x/÷ signs (Operation; 1st button)<br>1. In left box choose SkullStrippedMaskByte_<filename>.b0<br>2. In center pull-down menu choose Multiplication<br>3. In right box choose FA.dat; click OK<br>
Under IMAGE, click disc icon (Save Image File)<br>1. In left box choose SkullStripped_<filename>.b0, click arrow, click OK<br>2. Save as <filename>.b0ss<br>3. Repeat save, choose Multiply_<br>SkullStrippedMaskByte_<filename>.b0_FA.dat, click arrow, click OK<br>
4. Save as <filename.fass<br><br>Hope this helps,<br><br>Julie<br><br>Julie E. McEntee, MA, CCRP<br>Senior Research Program Coordinator<br>Department of Psychiatry- Neuroimaging<br>Johns Hopkins University School of Medicine<br>
600 N. Wolfe St./Phipps 300<br>Baltimore, MD 21287<br>Phone: 410-502-0468<br>Fax: 410-614-3676<br><br><br>On 5/20/10 3:39 PM, "Naama Barnea-Goraly" <<a href="http://lists.mristudio.org/mailman/listinfo/mristudio-users">naamab at stanford.edu</a>> wrote:<br>
<br>><i> <br></i>><i> Could anyone send out a step by step process for skull stripping in<br></i>><i> ROIeditor? (perhaps using a B0 image?).<br></i>><i> <br></i>><i> Thanks,<br></i>><i> <br></i>><i> Naama<br>
</i>><i> <br></i>><i> <br></i>><i> <br></i>><i> Naama Barnea-Goraly M.D.<br></i>><i> Instructor<br></i>><i> Center for Interdisciplinary Brain Sciences Research<br></i>><i> Stanford University Division of Child and Adolescent Psychiatry<br>
</i>><i> 401 Quarry Rd. MC 5795<br></i>><i> Stanford University School of Medicine<br></i>><i> Stanford, CA 94305-5795<br></i>><i> Phone: (650) 736-1874, fax: (650) 724-4794<br></i>><i> <br></i>><i> <br>
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</i>><i> are hereby notified that you have received this communication in error<br></i>><i> and that any review, disclosure, dissemination, distribution or<br></i>><i> copying of it or its contents is prohibited. If you have received<br>
</i>><i> this communication in error, please notify Stanford Medical Center<br></i>><i> immediately by telephone at (650) 725-5722 and destroy all copies of<br></i>><i> this communication and any attachments. Thank you.<br>
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