schema.svg

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<!-- Title: snakemake_dag Pages: 1 -->
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<title>snakemake_dag</title>
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<title>cluster_0</title>
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<text text-anchor="middle" x="96" y="-173" font-family="sans" font-size="10.00">Input</text>
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<title>cluster_1</title>
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<text text-anchor="middle" x="141" y="-98" font-family="sans" font-size="10.00">Preprocess</text>
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<title>cluster_2</title>
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<text text-anchor="middle" x="365" y="-146" font-family="sans" font-size="10.00">Align</text>
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<g id="clust4" class="cluster">
<title>cluster_3</title>
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<text text-anchor="middle" x="735" y="-146" font-family="sans" font-size="10.00">Genotype</text>
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<title>cluster_4</title>
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<text text-anchor="middle" x="980" y="-200" font-family="sans" font-size="10.00">Annotate</text>
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<title>cluster_5</title>
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<text text-anchor="middle" x="980" y="-71" font-family="sans" font-size="10.00">Swaps</text>
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<!-- reference -->
<g id="node1" class="node">
<title>reference</title>
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<text text-anchor="middle" x="141" y="-141" font-family="sans" font-size="10.00">Reference</text>
<text text-anchor="middle" x="141" y="-130" font-family="sans" font-size="10.00">Genome</text>
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<!-- bwa_mem2 -->
<g id="node4" class="node">
<title>bwa_mem2</title>
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<text text-anchor="middle" x="246.5" y="-108.5" font-family="sans" font-size="10.00">BWA&#45;MEM2</text>
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<!-- reference&#45;&gt;bwa_mem2 -->
<g id="edge2" class="edge">
<title>reference&#45;&gt;bwa_mem2</title>
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<!-- fastq -->
<g id="node2" class="node">
<title>fastq</title>
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<text text-anchor="middle" x="45" y="-141" font-family="sans" font-size="10.00">FASTQ</text>
<text text-anchor="middle" x="45" y="-130" font-family="sans" font-size="10.00">reads</text>
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<!-- fastp -->
<g id="node3" class="node">
<title>fastp</title>
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<text text-anchor="middle" x="141" y="-60.5" font-family="sans" font-size="10.00">fastp</text>
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<!-- fastq&#45;&gt;fastp -->
<g id="edge1" class="edge">
<title>fastq&#45;&gt;fastp</title>
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<!-- fastp&#45;&gt;bwa_mem2 -->
<g id="edge3" class="edge">
<title>fastp&#45;&gt;bwa_mem2</title>
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<!-- markduplicates -->
<g id="node5" class="node">
<title>markduplicates</title>
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<text text-anchor="middle" x="365.5" y="-108.5" font-family="sans" font-size="10.00">MarkDuplicates</text>
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<!-- bwa_mem2&#45;&gt;markduplicates -->
<g id="edge4" class="edge">
<title>bwa_mem2&#45;&gt;markduplicates</title>
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<!-- base_recalibrator -->
<g id="node6" class="node">
<title>base_recalibrator</title>
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<text text-anchor="middle" x="484" y="-108.5" font-family="sans" font-size="10.00">Recalibrate</text>
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<!-- markduplicates&#45;&gt;base_recalibrator -->
<g id="edge5" class="edge">
<title>markduplicates&#45;&gt;base_recalibrator</title>
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<!-- haplotype_caller -->
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<title>haplotype_caller</title>
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<text text-anchor="middle" x="603.5" y="-108.5" font-family="sans" font-size="10.00">HaplotypeCaller</text>
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<!-- base_recalibrator&#45;&gt;haplotype_caller -->
<g id="edge6" class="edge">
<title>base_recalibrator&#45;&gt;haplotype_caller</title>
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<!-- genotype_gvcfs -->
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<title>genotype_gvcfs</title>
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<text text-anchor="middle" x="735" y="-108.5" font-family="sans" font-size="10.00">GenotypeGVCFs</text>
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<!-- haplotype_caller&#45;&gt;genotype_gvcfs -->
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<title>haplotype_caller&#45;&gt;genotype_gvcfs</title>
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<!-- filter -->
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<title>filter</title>
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<text text-anchor="middle" x="866.5" y="-108.5" font-family="sans" font-size="10.00">VariantFiltration</text>
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<!-- genotype_gvcfs&#45;&gt;filter -->
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<title>genotype_gvcfs&#45;&gt;filter</title>
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<!-- snpeff -->
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<title>snpeff</title>
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<!-- filter&#45;&gt;snpeff -->
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<title>filter&#45;&gt;snpeff</title>
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<!-- vep -->
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<title>vep</title>
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<text text-anchor="middle" x="980" y="-108.5" font-family="sans" font-size="10.00">VEP</text>
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<!-- filter&#45;&gt;vep -->
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<title>filter&#45;&gt;vep</title>
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<!-- somalier -->
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<text text-anchor="middle" x="980" y="-33.5" font-family="sans" font-size="10.00">Somalier</text>
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<!-- filter&#45;&gt;somalier -->
<g id="edge11" class="edge">
<title>filter&#45;&gt;somalier</title>
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