<div dir="ltr">Hi Koji,<div><br></div><div>Seems fine to me. The transform matrix is essentially a 3x3 rotation matrix (the top-left part), and a translation vector (the right column). You can ignore the bottom row. This basically says you have a pure axial acquisition (rotation matrix is identity), with the bottom left pixel in your image volume centred [ -1.12 -0.26 0.27 ] mm away from the isocentre of your scanner. Given that this is a small animal system, the fact that your translation vector is so much smaller than in our example simply reflects the much smaller FoV in your data. </div>
<div><br></div><div>Cheers,</div><div>Donald.</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Mon, Jun 2, 2014 at 7:45 AM, 鎌形康司 <span dir="ltr"><<a href="mailto:kkamagat@juntendo.ac.jp" target="_blank">kkamagat@juntendo.ac.jp</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div><font>Hi,<br><br>I have a question about the gradient direction table used in Mrtrix.</font></div><div>
Jones 30 MPG was used, but, in our DWI data. there is no information about gradient direction in dicom header.</div>
<div>Our scanner is <strong>7T</strong> <strong>Bruker</strong> <strong>Scanner</strong> (The <strong>7T</strong> (20 cm bore) small <strong>animal</strong> imaging system).</div><div><br></div><div>I can check this using <a href="http://www.brain.org.au/software/mrtrix/commands/mrinfo.html" target="_blank"><font color="#0066cc">mrinfo</font></a>, but there is a some different things between our data and example in Frequently Asked Questions.</div>
<div><br></div><div><strong>our data</strong></div><div><br></div><div> Transform: 1 0 0 -1.12<br> -0 1 0 -0.26<br> -0 -0 1 0.27<br>
0 0 0 1 </div><div><br></div><div><strong>example data</strong></div><div><strong></strong><br></div><div>Transform: 1 0 -0 -115.4<br>
0 1 -0 -106.6<br> -0 -0 1 -7.898<br> 0 0 0 1</div>
<div>Is this correct?</div><span class="HOEnZb"><font color="#888888"><div><br>-- <br></div><div dir="ltr"><div>Koji Kamagata, MD, PhD</div><div>Department of Radiology, Juntendo University School of Medicine,</div><div>
2–1-1, Hongo Bunkyo-ku Tokyo 113-8421 Japan; </div>
<div>e-mail: <a href="mailto:kkamagat@juntendo.ac.jp" target="_blank">kkamagat@juntendo.ac.jp</a></div></div>
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<br></blockquote></div><br><br clear="all"><div><br></div>-- <br><div dir="ltr"><b><font color="#990000">Dr J-Donald Tournier (PhD)</font></b><br><div><font color="#990000"><br></font></div><i><font color="#990000">Senior Lecturer, </font></i><i><font color="#990000">Biomedical Engineering</font></i><div>
<i><font color="#990000">Division of Imaging Sciences & Biomedical Engineering<br>King's College London</font></i><div><i><font color="#990000"><br></font></i></div><div><i><font color="#990000"><b style="font-family:Calibri,sans-serif;font-size:15px"><span style="font-size:10pt">A:</span></b><span style="font-family:Calibri,sans-serif;font-size:10pt"> Department of Perinatal Imaging & Health, 1<sup>st</sup> Floor South Wing, St Thomas' Hospital, London. SE1 7EH</span><br>
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