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nextflow_schema.json

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"type": "boolean",
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"description": "Specify to run deduplicaiton without splitting bams by contig (default behavior).",
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"fa_icon": "fas fa-forward",
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"help_text": "Run deduplication steps bam-by-bam rather than contig-by-contig for each bam file. This reduces the total number of jobs submitted to a cluster, but increases the computational runtime. If you use a shared cluster with limited resources, running many low-resource jobs can slow down the overall runtime of eager due to scheduling constraints.\nAlso applicable for poor-quality reference genomes."
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"help_text": "Run deduplication steps bam-by-bam rather than contig-by-contig for each bam file. This reduces the total number of jobs submitted to a cluster, but increases the computational runtime. If you use a shared cluster with limited resources, running many low-resource jobs can slow down the overall runtime of eager due to scheduling constraints.\nAlso applicable for poor-quality reference genomes."
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},
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"deduplication_tool": {
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"type": "string",

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