<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hello,<div><br></div><div>I am trying to use pico to estimate the probability of connectivity between a bunch of voxels and I get inconsistent results, so I was seeking for help to understand what I am doing wrong. </div><div><br></div><div><div>cat brainDT.Bdouble | picopdfs -inputmodel dt -luts picoTable.dat > brainPICoPDFs.Bdouble</div><div><br></div><div>track -inputfile brainPICoPDFs.Bdouble -inputmodel pico -seedfile mask | procstreamlines -outputcp -outputroot results/ -seedfile mask </div></div><div> </div><div>> brainDT.Bdouble is obtained with dtfit and looks ok</div><div>> mask is an indexed mask of voxels (from 1 to n_voxels)</div><div>> picoTable is obtained with dtlutgen</div><div><br></div><div>I get .img files that basically contains white spots that are outside the brain, and since this is the first time I use camino I am really clueless.</div><div><br></div><div>Any kind of help would be greatly appreciated!</div><div><br></div><div>Silvia</div><div><br></div><div><br><div>
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="orphans: 2; text-align: -webkit-auto; text-indent: 0px; widows: 2; -webkit-text-decorations-in-effect: none; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="orphans: 2; text-align: -webkit-auto; text-indent: 0px; widows: 2; -webkit-text-decorations-in-effect: none; "><div style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">*****************************************************</div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Silvia De Santis<br>CUBRIC<br>School of Psychology<br>Cardiff University<br>Tel: 029 2087 0354<br>Fax: 029 2087 0339<br>Web: <a href="http://psych.cf.ac.uk/contactsandpeople/researchfellows/desantis.php">http://psych.cf.ac.uk/contactsandpeople/researchfellows/desantis.php</a></div><div style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">*****************************************************</div></span></div></span></div>
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<span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "><span class="Apple-style-span" style="orphans: 2; text-align: -webkit-auto; text-indent: 0px; widows: 2; -webkit-text-decorations-in-effect: none; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="orphans: 2; text-align: -webkit-auto; text-indent: 0px; widows: 2; -webkit-text-decorations-in-effect: none; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="orphans: 2; text-align: -webkit-auto; text-indent: 0px; widows: 2; -webkit-text-decorations-in-effect: none; "><div style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">*****************************************************</div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Silvia De Santis<br>CUBRIC<br>School of Psychology<br>Cardiff University<br>Tel: 029 2087 0354<br>Fax: 029 2087 0339<br>Web: <a href="http://psych.cf.ac.uk/contactsandpeople/researchfellows/desantis.php">http://psych.cf.ac.uk/contactsandpeople/researchfellows/desantis.php</a></div><div style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">*****************************************************</div></span></div></span></div></span></span>
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