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Copy pathmodules.json
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216 lines (216 loc) · 9.85 KB
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{
"name": "nf-core/bactmap",
"homePage": "https://github.com/nf-core/bactmap",
"repos": {
"https://github.com/nf-core/modules.git": {
"modules": {
"nf-core": {
"adapterremoval": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
},
"bcftools/filter": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["modules"]
},
"bcftools/index": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["bam_variant_calling_sort_freebayes_bcftools"]
},
"bcftools/norm": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["modules"]
},
"bcftools/query": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["modules"]
},
"bcftools/sort": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["bam_variant_calling_sort_freebayes_bcftools"]
},
"bcftools/stats": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["modules"]
},
"bcftools/view": {
"branch": "master",
"git_sha": "6383d8fe58f9498eecd5aa303e71a4a932d1e9f6",
"installed_by": ["modules"]
},
"bedtools/subtract": {
"branch": "master",
"git_sha": "88d43dad73a675e66bff49ebb57fe657a5909018",
"installed_by": ["modules"]
},
"bowtie2/align": {
"branch": "master",
"git_sha": "e753770db613ce014b3c4bc94f6cba443427b726",
"installed_by": ["modules"]
},
"bowtie2/build": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
},
"bwamem2/index": {
"branch": "master",
"git_sha": "d86336f3e7ae0d5f76c67b0859409769cfeb2af2",
"installed_by": ["modules"]
},
"bwamem2/mem": {
"branch": "master",
"git_sha": "d86336f3e7ae0d5f76c67b0859409769cfeb2af2",
"installed_by": ["modules"]
},
"cat/fastq": {
"branch": "master",
"git_sha": "cf735af4433f2dc8e410f67012dff824ef9990eb",
"installed_by": ["modules"]
},
"falco": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
},
"fastp": {
"branch": "master",
"git_sha": "b8f1de0ac853ae5b56c63450d47438f899c553d0",
"installed_by": ["modules"]
},
"fastqc": {
"branch": "master",
"git_sha": "5bdb098216aaf5df9c3b6343e6204cd932503c16",
"installed_by": ["modules"]
},
"fastqscan": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
},
"filtlong": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
},
"freebayes": {
"branch": "master",
"git_sha": "d04951ee68e3e8b875ebf5ddb7ba6e05233624c1",
"installed_by": ["bam_variant_calling_sort_freebayes_bcftools"]
},
"gunzip": {
"branch": "master",
"git_sha": "96c57dfd98a0641886a67bd449fe33ee2ec0e374",
"installed_by": ["modules"]
},
"minimap2/align": {
"branch": "master",
"git_sha": "e753770db613ce014b3c4bc94f6cba443427b726",
"installed_by": ["modules"]
},
"minimap2/index": {
"branch": "master",
"git_sha": "e753770db613ce014b3c4bc94f6cba443427b726",
"installed_by": ["modules"]
},
"multiqc": {
"branch": "master",
"git_sha": "80cba9452fb1e9bb79884976fa1ca0e671949aa2",
"installed_by": ["modules"]
},
"nanoq": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
},
"porechop/abi": {
"branch": "master",
"git_sha": "10d3ce839d4c87bbff4da434e155a3c8a112ea05",
"installed_by": ["modules"]
},
"porechop/porechop": {
"branch": "master",
"git_sha": "e753770db613ce014b3c4bc94f6cba443427b726",
"installed_by": ["modules"]
},
"samtools/faidx": {
"branch": "master",
"git_sha": "9a48bce39a67e2cb34b8f125fc1d50f0ad98b616",
"installed_by": ["modules"]
},
"samtools/flagstat": {
"branch": "master",
"git_sha": "e334e12a1e985adc5ffc3fc78a68be1de711de45",
"installed_by": ["bam_stats_samtools"]
},
"samtools/idxstats": {
"branch": "master",
"git_sha": "c8be52dba1166c678e74cda9c3a3c221635c8bb1",
"installed_by": ["bam_stats_samtools"]
},
"samtools/index": {
"branch": "master",
"git_sha": "c8be52dba1166c678e74cda9c3a3c221635c8bb1",
"installed_by": ["bam_sort_stats_samtools", "modules"]
},
"samtools/sort": {
"branch": "master",
"git_sha": "5cb9a8694da0a0e550921636bb60bc8c56445fd7",
"installed_by": ["bam_sort_stats_samtools", "modules"]
},
"samtools/stats": {
"branch": "master",
"git_sha": "fe93fde0845f907fc91ad7cc7d797930408824df",
"installed_by": ["bam_stats_samtools", "modules"]
},
"seqtk/comp": {
"branch": "master",
"git_sha": "a46713779030a5f508117080cbf4b693dd4c6e33",
"installed_by": ["modules"]
},
"snpsites": {
"branch": "master",
"git_sha": "41dfa3f7c0ffabb96a6a813fe321c6d1cc5b6e46",
"installed_by": ["modules"]
}
}
},
"subworkflows": {
"nf-core": {
"bam_sort_stats_samtools": {
"branch": "master",
"git_sha": "eed5d14302a6c9070dcc25feeab707a27a4b3254",
"installed_by": ["subworkflows"]
},
"bam_stats_samtools": {
"branch": "master",
"git_sha": "eed5d14302a6c9070dcc25feeab707a27a4b3254",
"installed_by": ["bam_sort_stats_samtools", "subworkflows"]
},
"utils_nextflow_pipeline": {
"branch": "master",
"git_sha": "05954dab2ff481bcb999f24455da29a5828af08d",
"installed_by": ["subworkflows"]
},
"utils_nfcore_pipeline": {
"branch": "master",
"git_sha": "65f5e638d901a51534c68fd5c1c19e8112fb4df1",
"installed_by": ["subworkflows"]
},
"utils_nfschema_plugin": {
"branch": "master",
"git_sha": "fdc08b8b1ae74f56686ce21f7ea11ad11990ce57",
"installed_by": ["subworkflows"]
}
}
}
}
}
}