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modules.json
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{
"name": "nf-core/rnavar",
"homePage": "https://github.com/nf-core/rnavar",
"repos": {
"https://github.com/nf-core/modules.git": {
"modules": {
"nf-core": {
"bcftools/annotate": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["modules"]
},
"bcftools/concat": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["vcf_annotate_ensemblvep", "vcf_annotate_snpeff"]
},
"bcftools/pluginscatter": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["vcf_annotate_ensemblvep", "vcf_annotate_snpeff"]
},
"bcftools/sort": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["vcf_annotate_ensemblvep", "vcf_annotate_snpeff"]
},
"bedtools/merge": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["modules"]
},
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"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["modules"]
},
"cat/fastq": {
"branch": "master",
"git_sha": "c03f4019225fce21c11f194ff32eca396963f305",
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},
"ensemblvep/download": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["modules"]
},
"ensemblvep/vep": {
"branch": "master",
"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["modules", "vcf_annotate_ensemblvep"]
},
"fastqc": {
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"git_sha": "81880787133db07d9b4c1febd152c090eb8325dc",
"installed_by": ["modules"]
},
"gatk4/applybqsr": {
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},
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},
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},
"gatk4/combinegvcfs": {
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"installed_by": ["modules"]
},
"gatk4/createsequencedictionary": {
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},
"gatk4/haplotypecaller": {
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},
"gatk4/splitncigarreads": {
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"gatk4/variantfiltration": {
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},
"gffread": {
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},
"gunzip": {
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},
"mosdepth": {
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"multiqc": {
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},
"picard/markduplicates": {
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"samtools/convert": {
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"samtools/faidx": {
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"samtools/flagstat": {
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},
"samtools/idxstats": {
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},
"samtools/index": {
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},
"snpeff/download": {
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"snpeff/snpeff": {
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"tabix/bgziptabix": {
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},
"tabix/tabix": {
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"umitools/extract": {
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"untar": {
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}
}
},
"subworkflows": {
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"bam_sort_stats_samtools": {
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"installed_by": ["fastq_align_star", "subworkflows"]
},
"bam_stats_samtools": {
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"installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools"]
},
"fastq_align_star": {
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"installed_by": ["subworkflows"]
},
"utils_nextflow_pipeline": {
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"installed_by": ["subworkflows"]
},
"utils_nfcore_pipeline": {
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"utils_nfschema_plugin": {
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},
"vcf_annotate_ensemblvep": {
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}
}
}
}
}
}