Bypass Fan In Outer Slot

Gallery / Bypass Routing

A bypass line (QC) skips hub and alignment to reach a deeper station (MultiQC Report) in the Integration section, while dna/meth/rna/atac converge at a fan-in entry port. The bypass line claims the outer slot so no empty interior gaps appear (issue #655).

Mermaid source

%%metro title: Bypass Fan-in Outer Slot
%%metro style: dark
%%metro line: dna | DNA | #e63946
%%metro line: meth | Methylation | #0570b0
%%metro line: rna | RNA | #2db572
%%metro line: atac | ATAC | #f5c542
%%metro line: qc | QC | #ff8c00

graph LR
    subgraph ingest [Ingest]
        samplesheet[Samplesheet]
        demux[Demultiplex]
        samplesheet -->|dna,meth,rna,atac,qc| demux
    end

    subgraph trim [Trim & QC]
        fastp[Fastp]
        screen[Contam Screen]
        fastp -->|dna,meth,rna,atac,qc| screen
    end

    subgraph hub [Branch Hub]
        dispatch[Dispatch]
    end

    subgraph align_right [Alignment]
        bwa[BWA-MEM]
        markdup[MarkDup]
        bwa -->|dna,meth| markdup
    end

    subgraph quant_bottom [Quantification]
        salmon[Salmon]
        tximport[Tximport]
        salmon -->|rna| tximport
    end

    subgraph peaks_bottom [Peak Calling]
        macs[MACS2]
        macs -->|atac| macs2anno[Annotate Peaks]
    end

    subgraph integrate [Integration]
        mofa[MOFA Factor Model]
        report[MultiQC Report]
        mofa -->|dna,meth,rna,atac| report
    end

    demux -->|dna,meth,rna,atac,qc| fastp
    screen -->|dna,meth,rna,atac,qc| dispatch

    dispatch -->|dna,meth| bwa
    dispatch -->|rna| salmon
    dispatch -->|atac| macs

    markdup -->|dna,meth| mofa
    tximport -->|rna| mofa
    macs2anno -->|atac| mofa

    screen -->|qc| report

CLI command

nf-metro render examples/topologies/bypass_fan_in_outer_slot.mmd -o bypass_fan_in_outer_slot.svg

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