lrsomatic/modules.json at main · IntGenomicsLab/lrsomatic · GitHub

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{
    "name": "IntGenomicsLab/lrsomatic",
    "homePage": "https://github.com/IntGenomicsLab/lrsomatic",
    "repos": {
        "https://github.com/nf-core/modules.git": {
            "modules": {
                "nf-core": {
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                        "branch": "master",
                        "git_sha": "e753770db613ce014b3c4bc94f6cba443427b726",
                        "installed_by": ["modules"],
                        "patch": "modules/nf-core/ascat/ascat.diff"
                    },
                    "bcftools/annotate": {
                        "branch": "master",
                        "git_sha": "3d9c2f4beaa4f62b3f006928fd9095a496d1e5a8",
                        "installed_by": ["modules"]
                    },
                    "bcftools/concat": {
                        "branch": "master",
                        "git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
                        "installed_by": ["modules", "vcf_gather_bcftools"]
                    },
                    "bcftools/isec": {
                        "branch": "master",
                        "git_sha": "3b2c3559699a7bca6a7c2b220695a072e030e17d",
                        "installed_by": ["modules"],
                        "patch": "modules/nf-core/bcftools/isec/bcftools-isec.diff"
                    },
                    "bcftools/merge": {
                        "branch": "master",
                        "git_sha": "3d9c2f4beaa4f62b3f006928fd9095a496d1e5a8",
                        "installed_by": ["modules"],
                        "patch": "modules/nf-core/bcftools/merge/bcftools-merge.diff"
                    },
                    "bcftools/norm": {
                        "branch": "master",
                        "git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
                        "installed_by": ["modules"]
                    },
                    "bcftools/query": {
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                        "installed_by": ["modules"],
                        "patch": "modules/nf-core/bcftools/query/bcftools-query.diff"
                    },
                    "bcftools/sort": {
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                        "installed_by": ["modules", "vcf_gather_bcftools"],
                        "patch": "modules/nf-core/bcftools/sort/bcftools-sort.diff"
                    },
                    "deepvariant/callvariants": {
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                        "installed_by": ["deepvariant"],
                        "patch": "modules/nf-core/deepvariant/callvariants/deepvariant-callvariants.diff"
                    },
                    "deepvariant/makeexamples": {
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                        "installed_by": ["deepvariant"],
                        "patch": "modules/nf-core/deepvariant/makeexamples/deepvariant-makeexamples.diff"
                    },
                    "deepvariant/postprocessvariants": {
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                        "installed_by": ["deepvariant"],
                        "patch": "modules/nf-core/deepvariant/postprocessvariants/deepvariant-postprocessvariants.diff"
                    },
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                        "patch": "modules/nf-core/ensemblvep/vep/ensemblvep-vep.diff"
                    },
                    "longphase/haplotag": {
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                        "patch": "modules/nf-core/longphase/phase/longphase-phase.diff"
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                    "minimap2/align": {
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                        "patch": "modules/nf-core/minimap2/align/minimap2-align.diff"
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                    "minimap2/index": {
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                    "modkit/pileup": {
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                    "mosdepth": {
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                    "multiqc": {
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                    "nanoplot": {
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                    "pigz/uncompress": {
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                    "samtools/faidx": {
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                    },
                    "severus": {
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                        "patch": "modules/nf-core/severus/severus.diff"
                    },
                    "untar": {
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                    "unzip": {
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                    },
                    "whatshap/stats": {
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                        "installed_by": ["modules"]
                    }
                }
            },
            "subworkflows": {
                "nf-core": {
                    "bam_stats_samtools": {
                        "branch": "master",
                        "git_sha": "7ac6cbe7c17c2dad685da7f70496c8f48ea48687",
                        "installed_by": ["subworkflows"]
                    },
                    "deepvariant": {
                        "branch": "master",
                        "git_sha": "f2b138ee1d91f67d31c187317d7e83e429bf0309",
                        "installed_by": ["subworkflows"],
                        "patch": "subworkflows/nf-core/deepvariant/deepvariant.diff"
                    },
                    "utils_nextflow_pipeline": {
                        "branch": "master",
                        "git_sha": "05954dab2ff481bcb999f24455da29a5828af08d",
                        "installed_by": ["subworkflows"]
                    },
                    "utils_nfcore_pipeline": {
                        "branch": "master",
                        "git_sha": "a3fb7351b1fdb2b1de282b765816bbea190e86a8",
                        "installed_by": ["subworkflows"]
                    },
                    "utils_nfschema_plugin": {
                        "branch": "master",
                        "git_sha": "fdc08b8b1ae74f56686ce21f7ea11ad11990ce57",
                        "installed_by": ["subworkflows"]
                    }
                }
            }
        }
    }
}