<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Please unsubscribe me. Thanks Susanne<br class=""><div><blockquote type="cite" class=""><div class="">On Sep 27, 2016, at 9:08 AM, susumu mori <<a href="mailto:susumu@mri.jhu.edu" class="">susumu@mri.jhu.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Hi Mark,<div class=""><br class=""></div><div class="">In DiffeoMap, there is a button that can convert images to a byte format. I don't have DiffeoMap in my laptop (I'm out of my office), but it is one of those in the upper right column with a letter "B", I thought...</div></div><div class="gmail_extra"><br class=""><div class="gmail_quote">On Wed, Sep 21, 2016 at 5:46 PM, Mark Wagshul <span dir="ltr" class=""><<a href="mailto:Mark.Wagshul@einstein.yu.edu" target="_blank" class="">Mark.Wagshul@einstein.yu.edu</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
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<div class=""><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class="">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.
<u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class="">Anyone have an experience with this?<u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class="">Thanks,<u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class="">Mark<u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><span style="font-family: Calibri, sans-serif;" class="">____________________<br class="">
Mark Wagshul, PhD<br class="">
Associate Professor<br class="">
Gruss Magnetic Resonance Research Center<br class="">
Albert Einstein College of Medicine<br class="">
Bronx, NY 10461<br class="">
<br class="">
Ph: <a href="tel:718-430-4011" value="+17184304011" target="_blank" class="">718-430-4011</a><u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-family: Calibri, sans-serif;" class="">FAX: <a href="tel:718-430-3399" value="+17184303399" target="_blank" class="">718-430-3399</a><u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-family: Calibri, sans-serif;" class="">Email:
<a href="mailto:mark.wagshul@einstein.yu.edu" target="_blank" class=""><span style="color:blue" class="">mark.wagshul@einstein.yu.edu</span></a><u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-family: Calibri, sans-serif;" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><span style="font-family: Calibri, sans-serif;" class=""><span id="cid:image003.jpg@01D21430.1FF26250"><image003.jpg></span><u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-size: 7.5pt; font-family: Tahoma, sans-serif;" class="">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: 11pt; font-family: Calibri, sans-serif;" class=""><u class=""></u><u class=""></u></span></p><p class="MsoNormal"><span style="font-family: Calibri, sans-serif;" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1f497d" class=""><u class=""></u> <u class=""></u></span></p><p class="MsoNormal"><b class=""><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif"" class="">From:</span></b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif"" class=""> mristudio-users [mailto:<a href="mailto:mristudio-users-bounces@mristudio.org" target="_blank" class="">mristudio-users-<wbr class="">bounces@mristudio.org</a>]
<b class="">On Behalf Of </b>Ming Peng<br class="">
<b class="">Sent:</b> Wednesday, July 13, 2016 11:52 AM<br class="">
<b class="">To:</b> <a href="mailto:mristudio-users@mristudio.org" target="_blank" class="">mristudio-users@mristudio.org</a><br class="">
<b class="">Subject:</b> [Mristudio-users] How to recalculate gradient table of Philips DICOM files with 'gradient overplus' on<u class=""></u><u class=""></u></span></p><p class="MsoNormal"><u class=""></u> <u class=""></u></p>
<div class=""><p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Arial","sans-serif"" class="">Hi: <br class="">
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 class="">
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 class="">
1 - DTI_gradient_table_creator <br class="">
</span><a href="http://godzilla.kennedykrieger.org/~jfarrell/software_web.htm#DTI_gradient_table_creator" target="_blank" class=""><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#6611cc;border:none windowtext 1.0pt;padding:0in;text-decoration:none" class="">http://godzilla.<wbr class="">kennedykrieger.org/~jfarrell/<wbr class="">software_web.htm#DTI_gradient_<wbr class="">table_creator</span></a><span style="font-size:10.0pt;font-family:"Arial","sans-serif"" class=""> <br class="">
<br class="">
This tool can only parse data in PAR/REC format, however my data are thousands of separate .dcm files from a single patient.</span><u class=""></u><u class=""></u></p>
<div class=""><p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Arial","sans-serif"" class=""><br class="">
2 - DTI gradient table <br class="">
</span><a href="http://jp.mathworks.com/matlabcentral/fileexchange/41876-dti-gradient-table/content/dti_grad_table.m" target="_blank" class=""><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#6611cc;border:none windowtext 1.0pt;padding:0in;text-decoration:none" class="">http://jp.mathworks.com/<wbr class="">matlabcentral/fileexchange/<wbr class="">41876-dti-gradient-table/<wbr class="">content/dti_grad_table.m</span></a><span style="font-size:10.0pt;font-family:"Arial","sans-serif"" class=""> <br class="">
<br class="">
It only works for a multi-frame dcm file. <br class="">
<br class="">
My questions is: <br class="">
a - How can i recalculate the gradient table from these .dcm files ? <br class="">
b - Is there any other tools suited for this situation ? <br class="">
<br class="">
Thanks </span><u class=""></u><u class=""></u></p>
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