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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Hi. I am new to using Diffeomorph and am running into a file format problem. When I try to run a single channel LDDMM using one of the supplied templates
(JHU-MNI-SS-T1), it gives me an error saying that the template needs to be a byte image. I thought this was supplied by the Diffeomorph software so would already be in the required format.
<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Anyone have an experience with this?<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Thanks,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Mark<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-family:"Calibri","sans-serif";color:black">____________________<br>
Mark Wagshul, PhD<br>
Associate Professor<br>
Gruss Magnetic Resonance Research Center<br>
Albert Einstein College of Medicine<br>
Bronx, NY 10461<br>
<br>
Ph: 718-430-4011<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-family:"Calibri","sans-serif";color:black">FAX: 718-430-3399<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-family:"Calibri","sans-serif";color:black">Email:
<a href="mailto:mark.wagshul@einstein.yu.edu"><span style="color:blue">mark.wagshul@einstein.yu.edu</span></a><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-family:"Calibri","sans-serif";color:black"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-family:"Calibri","sans-serif";color:black"><img border="0" width="298" height="95" id="Picture_x0020_1" src="cid:image003.jpg@01D21430.1FF26250" alt="einstein-logo-rgb"><o:p></o:p></span></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto"><span style="font-size:7.5pt;font-family:"Tahoma","sans-serif";color:black">This email message and any accompanying attachments may contain privileged information intended only for the named recipient(s).
If you are not the intended recipient(s), you are hereby notified that the dissemination, distribution, and or copying of this message is strictly prohibited. If you receive this message in error, or are not the named recipient(s), please notify the sender
at the email address above, delete this email from your computer, and destroy any copies in any form immediately.</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:black"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-family:"Calibri","sans-serif";color:black"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif"">From:</span></b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif""> mristudio-users [mailto:mristudio-users-bounces@mristudio.org]
<b>On Behalf Of </b>Ming Peng<br>
<b>Sent:</b> Wednesday, July 13, 2016 11:52 AM<br>
<b>To:</b> mristudio-users@mristudio.org<br>
<b>Subject:</b> [Mristudio-users] How to recalculate gradient table of Philips DICOM files with 'gradient overplus' on<o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Arial","sans-serif"">Hi: <br>
I have a dataset of DICOM files (a directory contains lots of .dcm files), and these data are collected from Philips device with "gradient overplus" option on. <br>
After googling, I found that the gradient table of these data should be recalculated if the "gradient overplus" option is on for Philips devices. And I found several tools: <br>
1 - DTI_gradient_table_creator <br>
</span><a href="http://godzilla.kennedykrieger.org/~jfarrell/software_web.htm#DTI_gradient_table_creator" target="_blank"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#6611CC;border:none windowtext 1.0pt;padding:0in;text-decoration:none">http://godzilla.kennedykrieger.org/~jfarrell/software_web.htm#DTI_gradient_table_creator</span></a><span style="font-size:10.0pt;font-family:"Arial","sans-serif""> <br>
<br>
This tool can only parse data in PAR/REC format, however my data are thousands of separate .dcm files from a single patient.</span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Arial","sans-serif""><br>
2 - DTI gradient table <br>
</span><a href="http://jp.mathworks.com/matlabcentral/fileexchange/41876-dti-gradient-table/content/dti_grad_table.m" target="_blank"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#6611CC;border:none windowtext 1.0pt;padding:0in;text-decoration:none">http://jp.mathworks.com/matlabcentral/fileexchange/41876-dti-gradient-table/content/dti_grad_table.m</span></a><span style="font-size:10.0pt;font-family:"Arial","sans-serif""> <br>
<br>
It only works for a multi-frame dcm file. <br>
<br>
My questions is: <br>
a - How can i recalculate the gradient table from these .dcm files ? <br>
b - Is there any other tools suited for this situation ? <br>
<br>
Thanks </span><o:p></o:p></p>
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