images/dag.svg

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<!-- Title: snakemake_dag Pages: 1 -->
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<!-- 1 -->
<g id="node2" class="node">
<title>1</title>
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<!-- 1&#45;&gt;0 -->
<g id="edge6" class="edge">
<title>1&#45;&gt;0</title>
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<!-- 3 -->
<g id="node4" class="node">
<title>3</title>
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<text text-anchor="middle" x="597" y="-879.5" font-family="sans" font-size="10.00">snv_indels_bed_split</text>
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<!-- 1&#45;&gt;3 -->
<g id="edge15" class="edge">
<title>1&#45;&gt;3</title>
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<polygon fill="grey" stroke="grey" stroke-width="2" points="529.02,-902.35 537.97,-896.68 527.44,-895.53 529.02,-902.35"/>
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<!-- 2 -->
<g id="node3" class="node">
<title>2</title>
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<text text-anchor="middle" x="802" y="-159.5" font-family="sans" font-size="10.00">get_padded_baits</text>
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<!-- 2&#45;&gt;0 -->
<g id="edge12" class="edge">
<title>2&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M790.75,-143.96C776.58,-123.84 750.4,-90.75 720,-72 673.67,-43.42 611.37,-29.75 572.2,-23.59"/>
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<!-- 12 -->
<g id="node13" class="node">
<title>12</title>
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<text text-anchor="middle" x="817" y="-87.5" font-family="sans" font-size="10.00">depth_of_baits</text>
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<!-- 2&#45;&gt;12 -->
<g id="edge25" class="edge">
<title>2&#45;&gt;12</title>
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<polygon fill="grey" stroke="grey" stroke-width="2" points="814.66,-118.62 813.33,-108.1 807.82,-117.15 814.66,-118.62"/>
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<!-- 3&#45;&gt;0 -->
<g id="edge3" class="edge">
<title>3&#45;&gt;0</title>
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<!-- 4 -->
<g id="node5" class="node">
<title>4</title>
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<text text-anchor="middle" x="597" y="-807.5" font-family="sans" font-size="10.00">snv_indels_haplotypecaller</text>
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<!-- 3&#45;&gt;4 -->
<g id="edge16" class="edge">
<title>3&#45;&gt;4</title>
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<polygon fill="grey" stroke="grey" stroke-width="2" points="600.5,-838.1 597,-828.1 593.5,-838.1 600.5,-838.1"/>
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<!-- 4&#45;&gt;0 -->
<g id="edge11" class="edge">
<title>4&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M618.97,-791.79C629.6,-782.33 641.62,-769.74 649,-756 668.15,-720.37 668,-707.45 668,-667 668,-667 668,-667 668,-161 668,-104.24 610.7,-60.82 571.32,-37.67"/>
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<!-- 7 -->
<g id="node8" class="node">
<title>7</title>
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<text text-anchor="middle" x="590" y="-735.5" font-family="sans" font-size="10.00">snv_indels_bgzip</text>
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<!-- 4&#45;&gt;7 -->
<g id="edge20" class="edge">
<title>4&#45;&gt;7</title>
<path fill="none" stroke="grey" stroke-width="2" d="M595.27,-791.7C594.5,-783.98 593.57,-774.71 592.71,-766.11"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="596.19,-765.71 591.71,-756.1 589.22,-766.4 596.19,-765.71"/>
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<!-- 5 -->
<g id="node6" class="node">
<title>5</title>
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<text text-anchor="middle" x="558" y="-519.5" font-family="sans" font-size="10.00">variant_filtration</text>
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<!-- 5&#45;&gt;0 -->
<g id="edge4" class="edge">
<title>5&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M580.4,-503.87C591.23,-494.43 603.48,-481.83 611,-468 630.32,-432.46 630,-419.45 630,-379 630,-379 630,-379 630,-161 630,-113.01 592.06,-68.96 564.13,-43.04"/>
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<!-- 9 -->
<g id="node10" class="node">
<title>9</title>
<path fill="none" stroke="#5692d8" stroke-width="2" d="M590,-468C590,-468 510,-468 510,-468 504,-468 498,-462 498,-456 498,-456 498,-444 498,-444 498,-438 504,-432 510,-432 510,-432 590,-432 590,-432 596,-432 602,-438 602,-444 602,-444 602,-456 602,-456 602,-462 596,-468 590,-468"/>
<text text-anchor="middle" x="550" y="-447.5" font-family="sans" font-size="10.00">variant_annotator</text>
</g>
<!-- 5&#45;&gt;9 -->
<g id="edge22" class="edge">
<title>5&#45;&gt;9</title>
<path fill="none" stroke="grey" stroke-width="2" d="M556.02,-503.7C555.14,-495.98 554.08,-486.71 553.1,-478.11"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="556.57,-477.64 551.95,-468.1 549.61,-478.44 556.57,-477.64"/>
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<!-- 6 -->
<g id="node7" class="node">
<title>6</title>
<path fill="none" stroke="#56c9d8" stroke-width="2" d="M620.5,-612C620.5,-612 495.5,-612 495.5,-612 489.5,-612 483.5,-606 483.5,-600 483.5,-600 483.5,-588 483.5,-588 483.5,-582 489.5,-576 495.5,-576 495.5,-576 620.5,-576 620.5,-576 626.5,-576 632.5,-582 632.5,-588 632.5,-588 632.5,-600 632.5,-600 632.5,-606 626.5,-612 620.5,-612"/>
<text text-anchor="middle" x="558" y="-591.5" font-family="sans" font-size="10.00">snv_indels_bcftools_concat</text>
</g>
<!-- 6&#45;&gt;5 -->
<g id="edge17" class="edge">
<title>6&#45;&gt;5</title>
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<polygon fill="grey" stroke="grey" stroke-width="2" points="561.5,-550.1 558,-540.1 554.5,-550.1 561.5,-550.1"/>
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<!-- 7&#45;&gt;6 -->
<g id="edge18" class="edge">
<title>7&#45;&gt;6</title>
<path fill="none" stroke="grey" stroke-width="2" d="M563.42,-719.91C551.76,-710.81 539.31,-698.49 533,-684 524.1,-663.58 532.2,-639.14 541.48,-621.04"/>
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<!-- 8 -->
<g id="node9" class="node">
<title>8</title>
<path fill="none" stroke="#56d892" stroke-width="2" d="M628,-684C628,-684 554,-684 554,-684 548,-684 542,-678 542,-672 542,-672 542,-660 542,-660 542,-654 548,-648 554,-648 554,-648 628,-648 628,-648 634,-648 640,-654 640,-660 640,-660 640,-672 640,-672 640,-678 634,-684 628,-684"/>
<text text-anchor="middle" x="591" y="-663.5" font-family="sans" font-size="10.00">snv_indels_tabix</text>
</g>
<!-- 7&#45;&gt;8 -->
<g id="edge21" class="edge">
<title>7&#45;&gt;8</title>
<path fill="none" stroke="grey" stroke-width="2" d="M590.25,-719.7C590.36,-711.98 590.49,-702.71 590.61,-694.11"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="594.11,-694.15 590.76,-684.1 587.11,-694.05 594.11,-694.15"/>
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<!-- 8&#45;&gt;6 -->
<g id="edge19" class="edge">
<title>8&#45;&gt;6</title>
<path fill="none" stroke="grey" stroke-width="2" d="M582.84,-647.7C579.09,-639.73 574.55,-630.1 570.38,-621.26"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="573.49,-619.66 566.06,-612.1 567.16,-622.64 573.49,-619.66"/>
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<!-- 9&#45;&gt;0 -->
<g id="edge13" class="edge">
<title>9&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M558.5,-431.99C570.77,-405.82 592,-353.79 592,-307 592,-307 592,-307 592,-161 592,-117.8 569,-72.19 552.22,-44.66"/>
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<!-- 10 -->
<g id="node11" class="node">
<title>10</title>
<path fill="none" stroke="#c6d856" stroke-width="2" d="M455,-396C455,-396 375,-396 375,-396 369,-396 363,-390 363,-384 363,-384 363,-372 363,-372 363,-366 369,-360 375,-360 375,-360 455,-360 455,-360 461,-360 467,-366 467,-372 467,-372 467,-384 467,-384 467,-390 461,-396 455,-396"/>
<text text-anchor="middle" x="415" y="-375.5" font-family="sans" font-size="10.00">detected_variants</text>
</g>
<!-- 9&#45;&gt;10 -->
<g id="edge23" class="edge">
<title>9&#45;&gt;10</title>
<path fill="none" stroke="grey" stroke-width="2" d="M516.98,-431.88C498.92,-422.51 476.35,-410.81 457.05,-400.8"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="458.64,-397.69 448.15,-396.19 455.42,-403.9 458.64,-397.69"/>
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<!-- 10&#45;&gt;0 -->
<g id="edge5" class="edge">
<title>10&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M450.8,-359.94C491.98,-337.53 554,-293.99 554,-235 554,-235 554,-235 554,-161 554,-120.86 546.45,-74.9 540.87,-46.4"/>
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<!-- 11 -->
<g id="node12" class="node">
<title>11</title>
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<text text-anchor="middle" x="156" y="-303.5" font-family="sans" font-size="10.00">sample_target_list</text>
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<!-- 10&#45;&gt;11 -->
<g id="edge24" class="edge">
<title>10&#45;&gt;11</title>
<path fill="none" stroke="grey" stroke-width="2" d="M362.9,-362.92C321.56,-351.75 263.61,-336.08 219.54,-324.17"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="220.37,-320.77 209.8,-321.54 218.54,-327.53 220.37,-320.77"/>
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<!-- 14 -->
<g id="node15" class="node">
<title>14</title>
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<text text-anchor="middle" x="415" y="-231.5" font-family="sans" font-size="10.00">get_clinical_guidelines</text>
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<!-- 10&#45;&gt;14 -->
<g id="edge27" class="edge">
<title>10&#45;&gt;14</title>
<path fill="none" stroke="grey" stroke-width="2" d="M415,-359.87C415,-335.67 415,-291.21 415,-262.39"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="418.5,-262.19 415,-252.19 411.5,-262.19 418.5,-262.19"/>
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<!-- 17 -->
<g id="node18" class="node">
<title>17</title>
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<text text-anchor="middle" x="314" y="-87.5" font-family="sans" font-size="10.00">generate_pgx_report</text>
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<!-- 10&#45;&gt;17 -->
<g id="edge32" class="edge">
<title>10&#45;&gt;17</title>
<path fill="none" stroke="grey" stroke-width="2" d="M401.91,-359.79C378.02,-327.01 328.55,-252.39 315,-180 311.19,-159.62 311.1,-136.16 311.87,-118.44"/>
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<!-- 11&#45;&gt;0 -->
<g id="edge8" class="edge">
<title>11&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M151.53,-287.89C142.49,-251.89 123.81,-169.56 135,-144 153.92,-100.78 170.61,-92.7 213,-72 308.05,-25.58 435.72,-18.68 497.88,-18.34"/>
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<!-- 13 -->
<g id="node14" class="node">
<title>13</title>
<path fill="none" stroke="#d87556" stroke-width="2" d="M115.5,-252C115.5,-252 40.5,-252 40.5,-252 34.5,-252 28.5,-246 28.5,-240 28.5,-240 28.5,-228 28.5,-228 28.5,-222 34.5,-216 40.5,-216 40.5,-216 115.5,-216 115.5,-216 121.5,-216 127.5,-222 127.5,-228 127.5,-228 127.5,-240 127.5,-240 127.5,-246 121.5,-252 115.5,-252"/>
<text text-anchor="middle" x="78" y="-231.5" font-family="sans" font-size="10.00">depth_of_targets</text>
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<!-- 11&#45;&gt;13 -->
<g id="edge26" class="edge">
<title>11&#45;&gt;13</title>
<path fill="none" stroke="grey" stroke-width="2" d="M136.72,-287.7C127.08,-279.05 115.27,-268.45 104.77,-259.03"/>
<polygon fill="grey" stroke="grey" stroke-width="2" points="106.84,-256.18 97.06,-252.1 102.16,-261.39 106.84,-256.18"/>
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<!-- 12&#45;&gt;0 -->
<g id="edge14" class="edge">
<title>12&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M772.28,-75.88C767.47,-74.53 762.64,-73.22 758,-72 692.84,-54.88 616.32,-37.22 571.98,-27.23"/>
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<!-- 13&#45;&gt;0 -->
<g id="edge2" class="edge">
<title>13&#45;&gt;0</title>
<path fill="none" stroke="grey" stroke-width="2" d="M74.63,-215.98C69.2,-182.99 62.73,-110.26 102,-72 130.17,-44.56 397.61,-26.76 497.56,-21.02"/>
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<!-- 16 -->
<g id="node17" class="node">
<title>16</title>
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<!-- 13&#45;&gt;16 -->
<g id="edge29" class="edge">
<title>13&#45;&gt;16</title>
<path fill="none" stroke="grey" stroke-width="2" d="M106.87,-215.88C122.29,-206.72 141.48,-195.34 158.1,-185.48"/>
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<!-- 14&#45;&gt;0 -->
<g id="edge7" class="edge">
<title>14&#45;&gt;0</title>
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<!-- 15 -->
<g id="node16" class="node">
<title>15</title>
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<!-- 14&#45;&gt;15 -->
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<title>14&#45;&gt;15</title>
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<title>15&#45;&gt;17</title>
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