Subworkflows

Subworkflows

Donut Falls is divided into several sub-workflows

• filter
• assembly
• polish
• hybrid
• metrics
• test
• trycycler

Basic connection of subworkflows

flowchart TB
    subgraph Nanopore assembly
    A[nanopore fastq]-->B[filter]
    B --> C[assembly with assembler]
    C --> D[polishing with medaka]
    end
    subgraph With Illumina polishing
    F[illumina fastq] --> B
    D --> G[additional polishing]
    F --> G
    end

    subgraph Hybrid assembly
    H[illumina fastq] --> I[assembly]
    J[nanopore fastq] --> I
    end

    A --> E[metrics]
    C --> E
    D --> E
    G --> E
    I --> E

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