293 lines
16 KiB
XML
293 lines
16 KiB
XML
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
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<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN"
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"http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd">
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<!-- Generated by graphviz version 8.1.0 (20230707.0739)
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-->
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<!-- Title: pipeline Pages: 1 -->
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<svg width="977pt" height="500pt"
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viewBox="0.00 0.00 977.09 500.00" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink">
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<g id="graph0" class="graph" transform="scale(1 1) rotate(0) translate(4 496)">
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<title>pipeline</title>
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<polygon fill="white" stroke="none" points="-4,4 -4,-496 973.09,-496 973.09,4 -4,4"/>
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<!-- CALL_dealwithsnvindel -->
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<g id="node1" class="node">
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<title>CALL_dealwithsnvindel</title>
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<ellipse fill="none" stroke="black" cx="340.54" cy="-162" rx="86.49" ry="18"/>
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<text text-anchor="middle" x="340.54" y="-156.57" font-family="Times New Roman,serif" font-size="14.00">call dealwithsnvindel</text>
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</g>
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<!-- CALL_hereditary -->
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<g id="node2" class="node">
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<title>CALL_hereditary</title>
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<ellipse fill="none" stroke="black" cx="430.54" cy="-90" rx="62.04" ry="18"/>
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<text text-anchor="middle" x="430.54" y="-84.58" font-family="Times New Roman,serif" font-size="14.00">call hereditary</text>
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</g>
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<!-- CALL_dealwithsnvindel->CALL_hereditary -->
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<g id="edge1" class="edge">
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<title>CALL_dealwithsnvindel->CALL_hereditary</title>
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<path fill="none" stroke="black" d="M361.87,-144.41C373.61,-135.28 388.36,-123.81 401.17,-113.84"/>
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<polygon fill="black" stroke="black" points="402.93,-116.13 408.68,-107.23 398.63,-110.61 402.93,-116.13"/>
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</g>
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<!-- CALL_mmr -->
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<g id="node5" class="node">
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<title>CALL_mmr</title>
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<ellipse fill="none" stroke="black" cx="179.54" cy="-90" rx="42.58" ry="18"/>
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<text text-anchor="middle" x="179.54" y="-84.58" font-family="Times New Roman,serif" font-size="14.00">call mmr</text>
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</g>
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<!-- CALL_dealwithsnvindel->CALL_mmr -->
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<g id="edge24" class="edge">
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<title>CALL_dealwithsnvindel->CALL_mmr</title>
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<path fill="none" stroke="black" d="M304.41,-145.29C278.87,-134.19 244.67,-119.32 218.52,-107.95"/>
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<polygon fill="black" stroke="black" points="220.14,-104.4 209.57,-103.62 217.35,-110.82 220.14,-104.4"/>
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</g>
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<!-- CALL_auto_report -->
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<g id="node6" class="node">
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<title>CALL_auto_report</title>
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<ellipse fill="none" stroke="black" cx="340.54" cy="-18" rx="69.03" ry="18"/>
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<text text-anchor="middle" x="340.54" y="-12.57" font-family="Times New Roman,serif" font-size="14.00">call auto_report</text>
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</g>
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<!-- CALL_dealwithsnvindel->CALL_auto_report -->
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<g id="edge17" class="edge">
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<title>CALL_dealwithsnvindel->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M340.54,-143.59C340.54,-119.5 340.54,-75.75 340.54,-47.03"/>
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<polygon fill="black" stroke="black" points="344.04,-47.11 340.54,-37.11 337.04,-47.11 344.04,-47.11"/>
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</g>
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<!-- CALL_hrr -->
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<g id="node14" class="node">
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<title>CALL_hrr</title>
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<ellipse fill="none" stroke="black" cx="276.54" cy="-90" rx="36.09" ry="18"/>
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<text text-anchor="middle" x="276.54" y="-84.58" font-family="Times New Roman,serif" font-size="14.00">call hrr</text>
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</g>
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<!-- CALL_dealwithsnvindel->CALL_hrr -->
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<g id="edge23" class="edge">
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<title>CALL_dealwithsnvindel->CALL_hrr</title>
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<path fill="none" stroke="black" d="M325.05,-144.05C317.04,-135.29 307.12,-124.45 298.35,-114.86"/>
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<polygon fill="black" stroke="black" points="301.34,-112.85 292.01,-107.83 296.18,-117.57 301.34,-112.85"/>
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</g>
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<!-- CALL_hereditary->CALL_auto_report -->
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<g id="edge6" class="edge">
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<title>CALL_hereditary->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M409.67,-72.76C397.94,-63.64 383.1,-52.1 370.19,-42.06"/>
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<polygon fill="black" stroke="black" points="372.66,-38.77 362.61,-35.39 368.36,-44.29 372.66,-38.77"/>
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</g>
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<!-- CALL_mutation_calling -->
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<g id="node3" class="node">
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<title>CALL_mutation_calling</title>
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<ellipse fill="none" stroke="black" cx="198.54" cy="-310" rx="85.99" ry="18"/>
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<text text-anchor="middle" x="198.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call mutation_calling</text>
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</g>
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<!-- CALL_neoantigen -->
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<g id="node4" class="node">
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<title>CALL_neoantigen</title>
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<ellipse fill="none" stroke="black" cx="143.54" cy="-234" rx="65.04" ry="18"/>
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<text text-anchor="middle" x="143.54" y="-228.57" font-family="Times New Roman,serif" font-size="14.00">call neoantigen</text>
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</g>
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<!-- CALL_mutation_calling->CALL_neoantigen -->
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<g id="edge2" class="edge">
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<title>CALL_mutation_calling->CALL_neoantigen</title>
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<path fill="none" stroke="black" d="M185.78,-291.84C178.91,-282.59 170.3,-271 162.64,-260.7"/>
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<polygon fill="black" stroke="black" points="165,-259.01 156.23,-253.07 159.38,-263.18 165,-259.01"/>
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</g>
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<!-- CALL_annovar -->
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<g id="node11" class="node">
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<title>CALL_annovar</title>
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<ellipse fill="none" stroke="black" cx="363.54" cy="-234" rx="55.06" ry="18"/>
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<text text-anchor="middle" x="363.54" y="-228.57" font-family="Times New Roman,serif" font-size="14.00">call annovar</text>
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</g>
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<!-- CALL_mutation_calling->CALL_annovar -->
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<g id="edge13" class="edge">
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<title>CALL_mutation_calling->CALL_annovar</title>
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<path fill="none" stroke="black" d="M233.94,-293.13C259.8,-281.53 294.95,-265.76 322.12,-253.58"/>
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<polygon fill="black" stroke="black" points="323.41,-256.39 331.1,-249.1 320.54,-250 323.41,-256.39"/>
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</g>
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<!-- CALL_mmr->CALL_auto_report -->
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<g id="edge3" class="edge">
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<title>CALL_mmr->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M208.32,-76.49C232.73,-65.87 268.14,-50.48 296.17,-38.29"/>
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<polygon fill="black" stroke="black" points="297.36,-41.16 305.13,-33.96 294.57,-34.74 297.36,-41.16"/>
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</g>
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<!-- CALL_statistics -->
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<g id="node7" class="node">
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<title>CALL_statistics</title>
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<ellipse fill="none" stroke="black" cx="907.54" cy="-310" rx="57.55" ry="18"/>
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<ellipse fill="none" stroke="black" cx="907.54" cy="-310" rx="61.55" ry="22"/>
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<text text-anchor="middle" x="907.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call statistics</text>
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</g>
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<!-- CALL_fusion -->
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<g id="node8" class="node">
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<title>CALL_fusion</title>
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<ellipse fill="none" stroke="black" cx="817.54" cy="-234" rx="48.57" ry="18"/>
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<text text-anchor="middle" x="817.54" y="-228.57" font-family="Times New Roman,serif" font-size="14.00">call fusion</text>
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</g>
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<!-- CALL_statistics->CALL_fusion -->
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<g id="edge4" class="edge">
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<title>CALL_statistics->CALL_fusion</title>
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<path fill="none" stroke="black" d="M883.89,-289.56C871.96,-279.75 857.42,-267.79 844.99,-257.57"/>
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<polygon fill="black" stroke="black" points="847.74,-254.47 837.79,-250.83 843.29,-259.88 847.74,-254.47"/>
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</g>
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<!-- CALL_fusion->CALL_auto_report -->
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<g id="edge16" class="edge">
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<title>CALL_fusion->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M793.85,-217.82C744.73,-186.88 627.52,-115.75 521.54,-72 482.42,-55.85 436.67,-42.5 400.95,-33.24"/>
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<polygon fill="black" stroke="black" points="402.24,-29.7 391.68,-30.61 400.51,-36.48 402.24,-29.7"/>
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</g>
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<!-- CALL_alignment -->
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<g id="node9" class="node">
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<title>CALL_alignment</title>
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<ellipse fill="none" stroke="black" cx="490.54" cy="-390" rx="60.54" ry="18"/>
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<ellipse fill="none" stroke="black" cx="490.54" cy="-390" rx="64.54" ry="22"/>
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<text text-anchor="middle" x="490.54" y="-384.57" font-family="Times New Roman,serif" font-size="14.00">call alignment</text>
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</g>
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<!-- CALL_alignment->CALL_mutation_calling -->
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<g id="edge18" class="edge">
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<title>CALL_alignment->CALL_mutation_calling</title>
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<path fill="none" stroke="black" d="M440.68,-375.68C390.89,-362.38 314.27,-341.91 260.58,-327.57"/>
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<polygon fill="black" stroke="black" points="261.73,-323.99 251.16,-324.79 259.92,-330.75 261.73,-323.99"/>
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</g>
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<!-- CALL_alignment->CALL_statistics -->
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<g id="edge11" class="edge">
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<title>CALL_alignment->CALL_statistics</title>
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<path fill="none" stroke="black" d="M550.04,-380.97C618.37,-371.3 733.67,-353.64 831.54,-332 837.71,-330.64 844.12,-329.08 850.48,-327.45"/>
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<polygon fill="black" stroke="black" points="851.33,-330.59 860.11,-324.65 849.55,-323.82 851.33,-330.59"/>
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</g>
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<!-- CALL_alignment->CALL_fusion -->
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<g id="edge8" class="edge">
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<title>CALL_alignment->CALL_fusion</title>
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<path fill="none" stroke="black" d="M554.06,-385.49C633.96,-379.73 764.82,-365.37 798.54,-332 816.43,-314.3 820.06,-285.05 819.89,-263.29"/>
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<polygon fill="black" stroke="black" points="823.36,-263.26 819.5,-253.39 816.36,-263.51 823.36,-263.26"/>
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</g>
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<!-- CALL_msi -->
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<g id="node10" class="node">
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<title>CALL_msi</title>
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<ellipse fill="none" stroke="black" cx="341.54" cy="-310" rx="38.59" ry="18"/>
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<text text-anchor="middle" x="341.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call msi</text>
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</g>
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<!-- CALL_alignment->CALL_msi -->
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<g id="edge5" class="edge">
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<title>CALL_alignment->CALL_msi</title>
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<path fill="none" stroke="black" d="M456.36,-371.11C432.19,-358.46 399.93,-341.57 375.76,-328.91"/>
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<polygon fill="black" stroke="black" points="377.75,-325.48 367.27,-323.95 374.51,-331.68 377.75,-325.48"/>
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</g>
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<!-- CALL_alignment->CALL_annovar -->
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<g id="edge21" class="edge">
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<title>CALL_alignment->CALL_annovar</title>
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<path fill="none" stroke="black" d="M465.85,-369.2C453.63,-358.79 439.07,-345.43 427.54,-332 408.46,-309.77 390.43,-281.54 378.4,-261.28"/>
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<polygon fill="black" stroke="black" points="381.06,-259.9 373,-253.03 375.02,-263.43 381.06,-259.9"/>
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</g>
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<!-- CALL_hotspot -->
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<g id="node12" class="node">
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<title>CALL_hotspot</title>
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<ellipse fill="none" stroke="black" cx="490.54" cy="-310" rx="54.06" ry="18"/>
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<text text-anchor="middle" x="490.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call hotspot</text>
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</g>
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<!-- CALL_alignment->CALL_hotspot -->
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<g id="edge9" class="edge">
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<title>CALL_alignment->CALL_hotspot</title>
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<path fill="none" stroke="black" d="M490.54,-367.69C490.54,-358.9 490.54,-348.59 490.54,-339.2"/>
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<polygon fill="black" stroke="black" points="494.04,-339.35 490.54,-329.35 487.04,-339.35 494.04,-339.35"/>
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</g>
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<!-- CALL_cnvkit -->
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<g id="node13" class="node">
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<title>CALL_cnvkit</title>
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<ellipse fill="none" stroke="black" cx="85.54" cy="-162" rx="48.07" ry="18"/>
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<text text-anchor="middle" x="85.54" y="-156.57" font-family="Times New Roman,serif" font-size="14.00">call cnvkit</text>
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</g>
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<!-- CALL_alignment->CALL_cnvkit -->
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<g id="edge10" class="edge">
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<title>CALL_alignment->CALL_cnvkit</title>
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<path fill="none" stroke="black" d="M426.8,-386.01C303.17,-379.56 40.53,-362.41 13.54,-332 -24.94,-288.65 27.51,-221.67 61.17,-186.46"/>
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<polygon fill="black" stroke="black" points="62.94,-189.63 67.44,-180.04 57.94,-184.74 62.94,-189.63"/>
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</g>
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<!-- CALL_chemo -->
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<g id="node15" class="node">
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<title>CALL_chemo</title>
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<ellipse fill="none" stroke="black" cx="613.54" cy="-310" rx="50.56" ry="18"/>
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<text text-anchor="middle" x="613.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call chemo</text>
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</g>
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<!-- CALL_alignment->CALL_chemo -->
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<g id="edge14" class="edge">
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<title>CALL_alignment->CALL_chemo</title>
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<path fill="none" stroke="black" d="M520.32,-370.12C538.56,-358.55 561.94,-343.72 580.72,-331.81"/>
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<polygon fill="black" stroke="black" points="582.23,-334.37 588.8,-326.06 578.48,-328.46 582.23,-334.37"/>
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</g>
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<!-- CALL_conpair -->
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<g id="node18" class="node">
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<title>CALL_conpair</title>
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<ellipse fill="none" stroke="black" cx="735.54" cy="-310" rx="53.56" ry="18"/>
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<text text-anchor="middle" x="735.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call conpair</text>
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</g>
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<!-- CALL_alignment->CALL_conpair -->
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<g id="edge25" class="edge">
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<title>CALL_alignment->CALL_conpair</title>
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<path fill="none" stroke="black" d="M537.66,-374.67C574.67,-363.33 627.49,-346.97 673.54,-332 678.42,-330.41 683.5,-328.74 688.57,-327.05"/>
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<polygon fill="black" stroke="black" points="689.51,-330.09 697.87,-323.59 687.28,-323.45 689.51,-330.09"/>
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</g>
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<!-- CALL_annovar->CALL_dealwithsnvindel -->
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<g id="edge7" class="edge">
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<title>CALL_annovar->CALL_dealwithsnvindel</title>
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<path fill="none" stroke="black" d="M357.85,-215.7C355.35,-208.07 352.34,-198.92 349.54,-190.4"/>
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<polygon fill="black" stroke="black" points="352.61,-189.51 346.16,-181.1 345.96,-191.7 352.61,-189.51"/>
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</g>
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<!-- CALL_tmb -->
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<g id="node16" class="node">
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<title>CALL_tmb</title>
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<ellipse fill="none" stroke="black" cx="503.54" cy="-162" rx="40.09" ry="18"/>
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<text text-anchor="middle" x="503.54" y="-156.57" font-family="Times New Roman,serif" font-size="14.00">call tmb</text>
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</g>
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<!-- CALL_annovar->CALL_tmb -->
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<g id="edge22" class="edge">
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<title>CALL_annovar->CALL_tmb</title>
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<path fill="none" stroke="black" d="M392.89,-218.33C414.68,-207.43 444.52,-192.51 467.71,-180.91"/>
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<polygon fill="black" stroke="black" points="469.15,-183.61 476.53,-176 466.02,-177.35 469.15,-183.61"/>
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</g>
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<!-- CALL_cnvkit->CALL_auto_report -->
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<g id="edge20" class="edge">
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<title>CALL_cnvkit->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M88.97,-143.85C93.93,-123.62 105.08,-90.42 127.54,-72 165.03,-41.26 217.86,-27.98 261.52,-22.4"/>
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<polygon fill="black" stroke="black" points="261.88,-25.77 271.41,-21.15 261.08,-18.82 261.88,-25.77"/>
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</g>
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<!-- CALL_hrr->CALL_auto_report -->
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<g id="edge12" class="edge">
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<title>CALL_hrr->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M291.06,-73.12C299.02,-64.42 309.04,-53.45 317.99,-43.66"/>
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<polygon fill="black" stroke="black" points="320.02,-46.54 324.18,-36.8 314.85,-41.82 320.02,-46.54"/>
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</g>
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<!-- CALL_tmb->CALL_auto_report -->
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<g id="edge15" class="edge">
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<title>CALL_tmb->CALL_auto_report</title>
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<path fill="none" stroke="black" d="M508.55,-143.73C513.07,-124.29 516.9,-92.74 501.54,-72 481.95,-45.55 448.74,-32.1 417.55,-25.33"/>
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<polygon fill="black" stroke="black" points="418.56,-21.77 408.08,-23.28 417.22,-28.64 418.56,-21.77"/>
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</g>
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<!-- CALL_hla -->
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<g id="node17" class="node">
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<title>CALL_hla</title>
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<ellipse fill="none" stroke="black" cx="58.54" cy="-310" rx="36.09" ry="18"/>
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<text text-anchor="middle" x="58.54" y="-304.57" font-family="Times New Roman,serif" font-size="14.00">call hla</text>
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</g>
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<!-- CALL_hla->CALL_neoantigen -->
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<g id="edge19" class="edge">
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<title>CALL_hla->CALL_neoantigen</title>
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<path fill="none" stroke="black" d="M75.74,-294.02C87.47,-283.81 103.24,-270.08 116.63,-258.43"/>
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<polygon fill="black" stroke="black" points="118.35,-260.7 123.59,-251.5 113.75,-255.42 118.35,-260.7"/>
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</g>
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<!-- CALL_qc -->
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<g id="node19" class="node">
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<title>CALL_qc</title>
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<ellipse fill="none" stroke="black" cx="490.54" cy="-470" rx="35.1" ry="18"/>
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<ellipse fill="none" stroke="black" cx="490.54" cy="-470" rx="39.1" ry="22"/>
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<text text-anchor="middle" x="490.54" y="-464.57" font-family="Times New Roman,serif" font-size="14.00">call qc</text>
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</g>
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<!-- CALL_qc->CALL_alignment -->
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<g id="edge26" class="edge">
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<title>CALL_qc->CALL_alignment</title>
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<path fill="none" stroke="black" d="M490.54,-447.69C490.54,-440.12 490.54,-431.43 490.54,-423.16"/>
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<polygon fill="black" stroke="black" points="494.04,-423.29 490.54,-413.29 487.04,-423.29 494.04,-423.29"/>
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</g>
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<!-- CALL_create_dir -->
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<g id="node20" class="node">
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<title>CALL_create_dir</title>
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