<html><head><style type='text/css'>p { margin: 0; }</style></head><body><div style='font-family: times new roman,new york,times,serif; font-size: 12pt; color: #000000'>Hi<br>No it is highly unlikely that the FA in the air will be 0.6. o.6 is a high FA and should mostly correspond to WM. I will suggest to mask the image, because the background is generally noise and the tensors from Noise (air) does not hold nay meaning. <div>Also, may be check manually for a voxel or two inside the brain if you are getting correct FA. </div><div><br></div><div><br></div><div>Vikash<br><hr id="zwchr"><blockquote style="border-left:2px solid #1010FF;margin-left:5px;padding-left:5px;color:#000;font-weight:normal;font-style:normal;text-decoration:none;font-family:Helvetica,Arial,sans-serif;font-size:12pt;"><b>From: </b>"Alba Garin" <agarin@ceit.es><br><b>To: </b>insight-users@itk.org<br><b>Sent: </b>Thursday, February 28, 2013 10:15:43 AM<br><b>Subject: </b>[Insight-users] itk::DiffusionTensor3D fa map<br><br><style><!--
@font-face
{font-family:"MS Mincho";
panose-1:2 2 6 9 4 2 5 8 3 4;}
@font-face
{font-family:"Cambria Math";
panose-1:2 4 5 3 5 4 6 3 2 4;}
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
@font-face
{font-family:Tahoma;
panose-1:2 11 6 4 3 5 4 4 2 4;}
@font-face
{font-family:"\@MS Mincho";
panose-1:2 2 6 9 4 2 5 8 3 4;}
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0cm;
margin-bottom:.0001pt;
font-size:11.0pt;
font-family:"Calibri","sans-serif";}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:blue;
text-decoration:underline;}
a:visited, span.MsoHyperlinkFollowed
{mso-style-priority:99;
color:purple;
text-decoration:underline;}
p.MsoAcetate, li.MsoAcetate, div.MsoAcetate
{mso-style-priority:99;
mso-style-link:"Balloon Text Char";
margin:0cm;
margin-bottom:.0001pt;
font-size:8.0pt;
font-family:"Tahoma","sans-serif";}
span.EmailStyle17
{mso-style-type:personal-compose;
font-family:"Calibri","sans-serif";
color:windowtext;}
span.BalloonTextChar
{mso-style-name:"Balloon Text Char";
mso-style-priority:99;
mso-style-link:"Balloon Text";
font-family:"Tahoma","sans-serif";}
.MsoChpDefault
{mso-style-type:export-only;}
@page WordSection1
{size:612.0pt 792.0pt;
margin:70.85pt 3.0cm 70.85pt 3.0cm;}
div.WordSection1
{page:WordSection1;}
--></style><div class="WordSection1"><p class="MsoNormal">Dear all,</p><p class="MsoNormal"> </p><p class="MsoNormal">I am computing different DTI maps from an Image with itk::DiffusionTensor3D pixel type. If I get MD, Trace, First Eigenvalue and other maps, I get a correct map, but If I compute the FA map, I get high values (0.6) in the air part of the image (around the brain). I mean, even the brain can be distinguished from the air, there are values in the air. Is this normal? Have this happened to anyone before?</p><p class="MsoNormal"> </p><p class="MsoNormal">Thanks in advance.</p><p class="MsoNormal">Regards,</p><p class="MsoNormal">Alba</p><p class="MsoNormal"> </p><table class="MsoNormalTable" border="0" cellspacing="0" cellpadding="0" width="60%" style="width:60.0%;border-collapse:collapse"><tbody><tr><td width="260" valign="top" style="width:195.0pt;padding:3.75pt 0cm 0cm 3.75pt"><table class="MsoNormalTable" border="0" cellspacing="0" cellpadding="0" width="100%" style="width:100.0%"><tbody><tr><td style="padding:0cm 0cm 0cm 0cm"><p class="MsoNormal"><b><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif"">Alba Garin Muga</span></b><span style="font-size:12.0pt"></span></p></td></tr><tr><td style="padding:0cm 0cm 0cm 0cm"><p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif"">Computer Science PhD Student</span><span style="font-size:12.0pt;font-family:"Times New Roman","serif""></span></p></td></tr><tr><td style="padding:0cm 0cm 0cm 0cm"><p class="MsoNormal"><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif"">Applied Mechanics Department</span><span style="font-size:12.0pt;font-family:"Times New Roman","serif""></span></p></td></tr><tr><td style="padding:0cm 0cm 0cm 0cm"><p class="MsoNormal" style="margin-top:6.0pt;mso-margin-bottom-alt:auto"><span lang="ES" style="font-size:8.0pt;font-family:"Tahoma","sans-serif"">Paseo Manuel Lardizabal, 15<br>20018 Donostia-San Sebastian. </span><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif"">Spain<br>Tel. +34 943 212 800 (Ext. 2111)<br>Fax: +34 943 213 076<br>Web: </span><span style="font-size:12.0pt;font-family:"Times New Roman","serif""><a href="http://www.ceit.es/" target="_blank"><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:blue">www.ceit.es</span></a></span><span style="font-size:12.0pt;font-family:"Times New Roman","serif""></span></p></td></tr></tbody></table></td><td width="659" valign="top" style="width:494.25pt;padding:0cm 0cm 0cm 0cm"><p class="MsoNormal"><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif""><img border="0" width="227" height="120" id="Picture_x0020_1" src="cid:image001.gif@01CE159B.37D3E1B0" alt="http://intranet.ceit.es/PlantillasCEIT/ImagenCorporativa/Firmas/firma_ceit.gif"></span><span style="font-size:12.0pt"></span></p></td></tr><tr><td colspan="2" valign="top" style="padding:3.75pt 0cm 0cm 3.75pt"><table class="MsoNormalTable" border="0" cellspacing="0" cellpadding="0" width="100%" style="width:100.0%"><tbody><tr><td width="4%" valign="top" style="width:4.0%;padding:0cm 0cm 0cm 0cm"><p class="MsoNormal"><img border="0" width="31" height="30" id="Picture_x0020_2" src="cid:image002.jpg@01CE159B.37D3E1B0" alt="Verde"><span style="font-size:12.0pt"></span></p></td><td width="96%" style="width:96.0%;padding:0cm 0cm 0cm 0cm"><p class="MsoNormal"><span lang="ES" style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:#009900">Antes de imprimir este e-mail piense bien si es necesario hacerlo. </span><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:#009900">El medioambiente es cosa de todos.</span></p><p class="MsoNormal"><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:#009900">Before printing this e-mail ask yourself if you really need a hard copy. We are all responsible for the environment.</span></p><p class="MsoNormal"><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:#009900">E-mail hau inprimatu baino lehen</span><span style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:#009900"> egiaztatu inprimatzeko beharra. </span><span lang="ES" style="font-size:8.0pt;font-family:"Tahoma","sans-serif";color:#009900">Ingurumena guztion ardura da</span><span style="font-size:12.0pt"></span></p></td></tr></tbody></table></td></tr></tbody></table><p class="MsoNormal"><span lang="ES"> </span></p><p class="MsoNormal"> </p></div><br>_____________________________________<br>Powered by www.kitware.com<br><br>Visit other Kitware open-source projects at<br>http://www.kitware.com/opensource/opensource.html<br><br>Kitware offers ITK Training Courses, for more information visit:<br>http://www.kitware.com/products/protraining.php<br><br>Please keep messages on-topic and check the ITK FAQ at:<br>http://www.itk.org/Wiki/ITK_FAQ<br><br>Follow this link to subscribe/unsubscribe:<br>http://www.itk.org/mailman/listinfo/insight-users<br></blockquote><br></div></div></body></html>