https://www.na-mic.org/w/index.php?action=history&feed=atom&title=Outline_of_Torso_Segmentation_Problem 2026-04-25T07:26:43Z Revision history for this page on the wiki MediaWiki 1.33.0 https://www.na-mic.org/w/index.php?title=Outline_of_Torso_Segmentation_Problem&diff=14354&oldid=prev 2007-08-13T23:11:54Z

<p></p> <table class="diff diff-contentalign-left" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 23:11, 13 August 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l3" >Line 3:</td> <td colspan="2" class="diff-lineno">Line 3:</td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>We currently take CT scans with vascular contrast and segment them into individual tissues.  Each one of these tissues is segmented utilizing different tools within Slicer.  Each label is then hierarchically combined using the unu command line tool in the TEEM toolkit developed by Gordon Kindlmann.   </div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>We currently take CT scans with vascular contrast and segment them into individual tissues.  Each one of these tissues is segmented utilizing different tools within Slicer.  Each label is then hierarchically combined using the unu command line tool in the TEEM toolkit developed by Gordon Kindlmann.   </div></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>We segment the following tissues:  Bounding box, torso(shadow), bowelgas, muscle, fat, liver, kidneys, lung, bone, blood, heart</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>We <ins class="diffchange diffchange-inline">current </ins>segment the following tissues:  Bounding box, torso(shadow), bowelgas, muscle, fat, liver, kidneys, lung, bone, blood, heart</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">We then use the unu tool to combine individual tissue which are labeled 1 with a background of 0 with the following command:</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 0 29y-85kgbbox.nrrd -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 1 29y-85kgtorso1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 2 29y-85kgbowelgas1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 3 29y-85kgmuscle1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 4 29y-85kgfat1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 5 29y-85kgliver1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 6 29y-85kgkidneys1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 7 29y-85kglung1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 8 29y-85kgbone1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 9 29y-85kgblood1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd</del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">unu 2op x 10 29y-85kgheart1-0.nrrd | unu 2op max max.nrrd - -o 29y-75kgcombined.nrrd</del></div></td><td colspan="2"> </td></tr> </table>

Mjolley https://www.na-mic.org/w/index.php?title=Outline_of_Torso_Segmentation_Problem&diff=14353&oldid=prev 2007-08-13T23:11:07Z

<p></p> <p><b>New page</b></p><div>'''Torso Segmentation'''<br /> <br /> We currently take CT scans with vascular contrast and segment them into individual tissues. Each one of these tissues is segmented utilizing different tools within Slicer. Each label is then hierarchically combined using the unu command line tool in the TEEM toolkit developed by Gordon Kindlmann. <br /> <br /> We segment the following tissues: Bounding box, torso(shadow), bowelgas, muscle, fat, liver, kidneys, lung, bone, blood, heart<br /> <br /> We then use the unu tool to combine individual tissue which are labeled 1 with a background of 0 with the following command:<br /> <br /> <br /> unu 2op x 0 29y-85kgbbox.nrrd -o max.nrrd<br /> <br /> unu 2op x 1 29y-85kgtorso1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 2 29y-85kgbowelgas1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 3 29y-85kgmuscle1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 4 29y-85kgfat1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 5 29y-85kgliver1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 6 29y-85kgkidneys1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 7 29y-85kglung1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 8 29y-85kgbone1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 9 29y-85kgblood1-0.nrrd | unu 2op max max.nrrd - -o max.nrrd<br /> <br /> unu 2op x 10 29y-85kgheart1-0.nrrd | unu 2op max max.nrrd - -o 29y-75kgcombined.nrrd</div>

Mjolley