flowchart TB
    subgraph " "
    v2["Channel.fromList"]
    v16["ch_fasta"]
    v83[" "]
    v130["Channel.of"]
    v133["Channel.fromPath"]
    v136["ch_workflow_summary"]
    v140["ch_methods_description"]
    v152["replace_names"]
    v153["sample_names"]
    end
    subgraph NFCORE_METHYLSEQ
    subgraph FASTA_INDEX_BISMARK_BWAMETH
    v17([BISMARK_GENOMEPREPARATION])
    end
    subgraph METHYLSEQ
    v38([CAT_FASTQ])
    v42([FASTQC])
    subgraph FASTQ_ALIGN_DEDUP_BISMARK
    v75([BISMARK_ALIGN])
    v80([BISMARK_DEDUPLICATE])
    v84([SAMTOOLS_SORT])
    v89([SAMTOOLS_INDEX])
    v94([BISMARK_METHYLATIONEXTRACTOR])
    v98([BISMARK_COVERAGE2CYTOSINE])
    v105([BISMARK_REPORT])
    v113([BISMARK_SUMMARY])
    v77(( ))
    v107(( ))
    v111(( ))
    v112(( ))
    end
    v154([MULTIQC])
    v3(( ))
    v18(( ))
    v149(( ))
    v150(( ))
    v151(( ))
    v158(( ))
    end
    end
    subgraph " "
    v43["ch_fastqc_html"]
    v76[" "]
    v78["ch_alignment_reports"]
    v85[" "]
    v86[" "]
    v87[" "]
    v90[" "]
    v91[" "]
    v92["bai"]
    v95["methylation_calls"]
    v96["methylation_bedgraph"]
    v99["coverage2cytosine_summary"]
    v100["coverage2cytosine_report"]
    v101["coverage2cytosine_coverage"]
    v155[" "]
    v156[" "]
    v157[" "]
    v160["versions"]
    v162[" "]
    end
    v2 --> v3
    v16 --> v17
    v16 --> v75
    v16 --> v98
    v17 --> v75
    v17 --> v94
    v17 --> v98
    v17 --> v18
    v3 --> v38
    v38 --> v3
    v38 --> v18
    v3 --> v42
    v42 --> v43
    v42 --> v18
    v3 --> v75
    v75 --> v80
    v75 --> v76
    v75 --> v18
    v75 --> v77
    v75 --> v107
    v77 --> v78
    v80 --> v84
    v80 --> v94
    v80 --> v18
    v83 --> v84
    v84 --> v89
    v84 --> v87
    v84 --> v86
    v84 --> v85
    v84 --> v18
    v89 --> v92
    v89 --> v91
    v89 --> v90
    v89 --> v18
    v94 --> v96
    v94 --> v95
    v94 --> v98
    v94 --> v18
    v94 --> v111
    v94 --> v112
    v98 --> v101
    v98 --> v100
    v98 --> v99
    v98 --> v18
    v18 --> v105
    v105 --> v18
    v18 --> v113
    v107 --> v113
    v111 --> v113
    v112 --> v113
    v113 --> v18
    v130 --> v18
    v133 --> v149
    v136 --> v18
    v140 --> v18
    v152 --> v154
    v153 --> v154
    v18 --> v154
    v149 --> v154
    v150 --> v154
    v151 --> v154
    v154 --> v157
    v154 --> v156
    v154 --> v155
    v154 --> v158
    v18 --> v160
    v158 --> v162