{
    "name": "nf-core/atacseq",
    "homePage": "https://github.com/nf-core/atacseq",
    "repos": {
        "https://github.com/nf-core/modules.git": {
            "modules": {
                "nf-core": {
                    "ataqv/ataqv": {
                        "branch": "master",
                        "git_sha": "11c7e5b3073845889060c793786bf3177275d62e",
                        "installed_by": ["modules"]
                    },
                    "ataqv/mkarv": {
                        "branch": "master",
                        "git_sha": "11c7e5b3073845889060c793786bf3177275d62e",
                        "installed_by": ["modules"]
                    },
                    "bowtie2/align": {
                        "branch": "master",
                        "git_sha": "fe54581f8bed20e4c4a51c616c93fd3379d89820",
                        "installed_by": ["fastq_align_bowtie2"]
                    },
                    "bowtie2/build": {
                        "branch": "master",
                        "git_sha": "6a24fbe314bb2e6fe6306c29a63076ea87e8eb3c",
                        "installed_by": ["modules"]
                    },
                    "bwa/index": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "bwa/mem": {
                        "branch": "master",
                        "git_sha": "603ecbd9f45300c9788f197d2a15a005685b4220",
                        "installed_by": ["fastq_align_bwa"]
                    },
                    "chromap/chromap": {
                        "branch": "master",
                        "git_sha": "603ecbd9f45300c9788f197d2a15a005685b4220",
                        "installed_by": ["fastq_align_chromap"]
                    },
                    "chromap/index": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "custom/dumpsoftwareversions": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "custom/getchromsizes": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "deeptools/computematrix": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "deeptools/plotfingerprint": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "deeptools/plotheatmap": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "deeptools/plotprofile": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "fastqc": {
                        "branch": "master",
                        "git_sha": "bd8092b67b5103bdd52e300f75889442275c3117",
                        "installed_by": ["fastq_fastqc_umitools_trimgalore"]
                    },
                    "gffread": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "gunzip": {
                        "branch": "master",
                        "git_sha": "e06548bfa36ee31869b81041879dd6b3a83b1d57",
                        "installed_by": ["modules"]
                    },
                    "homer/annotatepeaks": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "khmer/uniquekmers": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "macs2/callpeak": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "picard/collectmultiplemetrics": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "picard/markduplicates": {
                        "branch": "master",
                        "git_sha": "735e1e04e7e01751d2d6e97055bbdb6f70683cc1",
                        "installed_by": ["bam_markduplicates_picard"]
                    },
                    "picard/mergesamfiles": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "preseq/lcextrap": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "samtools/flagstat": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["bam_stats_samtools"]
                    },
                    "samtools/idxstats": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["bam_stats_samtools"]
                    },
                    "samtools/index": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools"]
                    },
                    "samtools/sort": {
                        "branch": "master",
                        "git_sha": "a0f7be95788366c1923171e358da7d049eb440f9",
                        "installed_by": ["bam_sort_stats_samtools"]
                    },
                    "samtools/stats": {
                        "branch": "master",
                        "git_sha": "735e1e04e7e01751d2d6e97055bbdb6f70683cc1",
                        "installed_by": ["bam_stats_samtools"]
                    },
                    "subread/featurecounts": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["modules"]
                    },
                    "trimgalore": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["fastq_fastqc_umitools_trimgalore"]
                    },
                    "ucsc/bedgraphtobigwig": {
                        "branch": "master",
                        "git_sha": "66290981ab6038ea86177ade40b9449bc790b0ce",
                        "installed_by": ["modules"]
                    },
                    "umitools/extract": {
                        "branch": "master",
                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                        "installed_by": ["fastq_fastqc_umitools_trimgalore"]
                    },
                    "untar": {
                        "branch": "master",
                        "git_sha": "5c460c5a4736974abde2843294f35307ee2b0e5e",
                        "installed_by": ["modules"]
                    }
                }
            },
            "subworkflows": {
                "nf-core": {
                    "bam_markduplicates_picard": {
                        "branch": "master",
                        "git_sha": "a9784afdd5dcda23b84e64db75dc591065d64653",
                        "installed_by": ["subworkflows"]
                    },
                    "bam_sort_stats_samtools": {
                        "branch": "master",
                        "git_sha": "735e1e04e7e01751d2d6e97055bbdb6f70683cc1",
                        "installed_by": ["fastq_align_bowtie2", "fastq_align_bwa", "fastq_align_chromap"]
                    },
                    "bam_stats_samtools": {
                        "branch": "master",
                        "git_sha": "735e1e04e7e01751d2d6e97055bbdb6f70683cc1",
                        "installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools"]
                    },
                    "fastq_align_bowtie2": {
                        "branch": "master",
                        "git_sha": "fe54581f8bed20e4c4a51c616c93fd3379d89820",
                        "installed_by": ["subworkflows"]
                    },
                    "fastq_align_bwa": {
                        "branch": "master",
                        "git_sha": "a9784afdd5dcda23b84e64db75dc591065d64653",
                        "installed_by": ["subworkflows"]
                    },
                    "fastq_align_chromap": {
                        "branch": "master",
                        "git_sha": "735e1e04e7e01751d2d6e97055bbdb6f70683cc1",
                        "installed_by": ["subworkflows"]
                    },
                    "fastq_fastqc_umitools_trimgalore": {
                        "branch": "master",
                        "git_sha": "a9784afdd5dcda23b84e64db75dc591065d64653",
                        "installed_by": ["subworkflows"]
                    }
                }
            }
        }
    }
}
