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modules.json
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modules.json
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{
"name": "dincalcilab/samurai",
"homePage": "https://github.com/dincalcilab/samurai",
"repos": {
"https://github.com/nf-core/modules.git": {
"modules": {
"nf-core": {
"bowtie2/align": {
"branch": "master",
"git_sha": "3c77ca9aac783e76c3614a06db3bfe4fef619bde",
"installed_by": ["fastq_align_dna"]
},
"bowtie2/build": {
"branch": "master",
"git_sha": "1fea64f5132a813ec97c1c6d3a74e0aee7142b6d",
"installed_by": ["fasta_index_dna"]
},
"bwa/index": {
"branch": "master",
"git_sha": "6278bf9afd4a4b2d00fa6052250e73da3d91546f",
"installed_by": ["fasta_index_dna", "modules"]
},
"bwa/mem": {
"branch": "master",
"git_sha": "b97197968ac12dde2463fa54541f6350c46f2035",
"installed_by": ["fastq_align_bwa", "fastq_align_dna", "modules"]
},
"bwamem2/index": {
"branch": "master",
"git_sha": "7081e04c18de9480948d34513a1c1e2d0fa9126d",
"installed_by": ["fasta_index_dna", "modules"]
},
"bwamem2/mem": {
"branch": "master",
"git_sha": "74363e1acc38eaedeede8d429477397c1a6f9e18",
"installed_by": ["fastq_align_dna", "modules"]
},
"custom/dumpsoftwareversions": {
"branch": "master",
"git_sha": "de45447d060b8c8b98575bc637a4a575fd0638e1",
"installed_by": ["modules"]
},
"dragmap/align": {
"branch": "master",
"git_sha": "9a7efcec9b21baf1c67342faa6b8d905c972207f",
"installed_by": ["fastq_align_dna"]
},
"dragmap/hashtable": {
"branch": "master",
"git_sha": "575e1bc54b083fb15e7dd8b5fcc40bea60e8ce83",
"installed_by": ["fasta_index_dna"]
},
"fastp": {
"branch": "master",
"git_sha": "003920c7f9a8ae19b69a97171922880220bedf56",
"installed_by": ["fastq_trim_fastp_fastqc", "modules"]
},
"fastqc": {
"branch": "master",
"git_sha": "f4ae1d942bd50c5c0b9bd2de1393ce38315ba57c",
"installed_by": ["fastq_trim_fastp_fastqc", "modules"]
},
"hmmcopy/readcounter": {
"branch": "master",
"git_sha": "68fa054a9188bbd523d2bf25c51309c07ab5ef3d",
"installed_by": ["modules"]
},
"multiqc": {
"branch": "master",
"git_sha": "b7ebe95761cd389603f9cc0e0dc384c0f663815a",
"installed_by": ["modules"]
},
"picard/collecthsmetrics": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["bam_qc_picard"]
},
"picard/collectmultiplemetrics": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["bam_qc_picard"]
},
"picard/collectwgsmetrics": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["bam_qc_picard"]
},
"picard/markduplicates": {
"branch": "master",
"git_sha": "ec833ac4c29db6005d18baccf3306f557c46b006",
"installed_by": ["bam_markduplicates_picard", "modules"]
},
"samtools/faidx": {
"branch": "master",
"git_sha": "aeb02a39d4c463598bfdcb2d964dbb7acbcf1298",
"installed_by": ["modules"]
},
"samtools/flagstat": {
"branch": "master",
"git_sha": "f4596fe0bdc096cf53ec4497e83defdb3a94ff62",
"installed_by": ["bam_stats_samtools", "modules"]
},
"samtools/idxstats": {
"branch": "master",
"git_sha": "f4596fe0bdc096cf53ec4497e83defdb3a94ff62",
"installed_by": ["bam_stats_samtools", "modules"]
},
"samtools/index": {
"branch": "master",
"git_sha": "f4596fe0bdc096cf53ec4497e83defdb3a94ff62",
"installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools", "modules"]
},
"samtools/sort": {
"branch": "master",
"git_sha": "4352dbdb09ec40db71e9b172b97a01dcf5622c26",
"installed_by": ["bam_sort_stats_samtools", "modules"]
},
"samtools/stats": {
"branch": "master",
"git_sha": "f4596fe0bdc096cf53ec4497e83defdb3a94ff62",
"installed_by": ["bam_stats_samtools", "modules"]
},
"samtools/view": {
"branch": "master",
"git_sha": "0bd7d2333a88483aa0476acea172e9f5f6dd83bb",
"installed_by": ["modules"]
},
"snapaligner/align": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["fastq_align_dna"]
},
"snapaligner/index": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["fasta_index_dna"]
},
"wisecondorx/convert": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"wisecondorx/newref": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"wisecondorx/predict": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
}
}
},
"subworkflows": {
"nf-core": {
"bam_markduplicates_picard": {
"branch": "master",
"git_sha": "f4596fe0bdc096cf53ec4497e83defdb3a94ff62",
"installed_by": ["subworkflows"]
},
"bam_qc_picard": {
"branch": "master",
"git_sha": "cfd937a668919d948f6fcbf4218e79de50c2f36f",
"installed_by": ["subworkflows"]
},
"bam_sort_stats_samtools": {
"branch": "master",
"git_sha": "4352dbdb09ec40db71e9b172b97a01dcf5622c26",
"installed_by": ["fastq_align_bwa"]
},
"bam_stats_samtools": {
"branch": "master",
"git_sha": "f4596fe0bdc096cf53ec4497e83defdb3a94ff62",
"installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools"]
},
"fasta_index_dna": {
"branch": "master",
"git_sha": "cfd937a668919d948f6fcbf4218e79de50c2f36f",
"installed_by": ["subworkflows"]
},
"fastq_align_bwa": {
"branch": "master",
"git_sha": "b97197968ac12dde2463fa54541f6350c46f2035",
"installed_by": ["subworkflows"]
},
"fastq_align_dna": {
"branch": "master",
"git_sha": "b97197968ac12dde2463fa54541f6350c46f2035",
"installed_by": ["subworkflows"]
},
"fastq_trim_fastp_fastqc": {
"branch": "master",
"git_sha": "cfd937a668919d948f6fcbf4218e79de50c2f36f",
"installed_by": ["subworkflows"]
},
"utils_nextflow_pipeline": {
"branch": "master",
"git_sha": "5caf7640a9ef1d18d765d55339be751bb0969dfa",
"installed_by": ["subworkflows"]
},
"utils_nfcore_pipeline": {
"branch": "master",
"git_sha": "5caf7640a9ef1d18d765d55339be751bb0969dfa",
"installed_by": ["subworkflows"]
},
"utils_nfvalidation_plugin": {
"branch": "master",
"git_sha": "5caf7640a9ef1d18d765d55339be751bb0969dfa",
"installed_by": ["subworkflows"]
}
}
}
}
}
}