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modules.json
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modules.json
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{
"name": "nf-core/pathogensurveillance",
"homePage": "https://github.com/nf-core/pathogensurveillance",
"repos": {
"https://github.com/nf-core/modules.git": {
"modules": {
"nf-core": {
"bakta/bakta": {
"branch": "master",
"git_sha": "9d0f89b445e1f5b2fb30476f4be9a8b519c07846",
"installed_by": ["modules"]
},
"bakta/baktadbdownload": {
"branch": "master",
"git_sha": "bacae7f0c22948c6e34fa001be4481985851282f",
"installed_by": ["modules"]
},
"busco": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"bwa/index": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"bwa/mem": {
"branch": "master",
"git_sha": "a64788f5ad388f1d2ac5bd5f1f3f8fc81476148c",
"installed_by": ["modules"]
},
"custom/dumpsoftwareversions": {
"branch": "master",
"git_sha": "bba7e362e4afead70653f84d8700588ea28d0f9e",
"installed_by": ["modules"]
},
"fastp": {
"branch": "master",
"git_sha": "3c77ca9aac783e76c3614a06db3bfe4fef619bde",
"installed_by": ["modules"]
},
"fastqc": {
"branch": "master",
"git_sha": "65ad3e0b9a4099592e1102e92e10455dc661cf53",
"installed_by": ["modules"]
},
"flye": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"gatk4/variantfiltration": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"graphtyper/genotype": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"graphtyper/vcfconcatenate": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"iqtree": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"mafft": {
"branch": "master",
"git_sha": "c0a22acfb0accdf8ab3ea4f755a4865d538dc53f",
"installed_by": ["modules"]
},
"multiqc": {
"branch": "master",
"git_sha": "4ab13872435962dadc239979554d13709e20bf29",
"installed_by": ["modules"]
},
"nanoplot": {
"branch": "master",
"git_sha": "3135090b46f308a260fc9d5991d7d2f9c0785309",
"installed_by": ["modules"]
},
"picard/addorreplacereadgroups": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["modules"]
},
"picard/createsequencedictionary": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["modules"]
},
"picard/markduplicates": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["modules"]
},
"picard/sortsam": {
"branch": "master",
"git_sha": "20b0918591d4ba20047d7e13e5094bcceba81447",
"installed_by": ["modules"]
},
"pirate": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"quast": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"samtools/faidx": {
"branch": "master",
"git_sha": "a64788f5ad388f1d2ac5bd5f1f3f8fc81476148c",
"installed_by": ["modules"]
},
"samtools/index": {
"branch": "master",
"git_sha": "a64788f5ad388f1d2ac5bd5f1f3f8fc81476148c",
"installed_by": ["modules"]
},
"seqkit/sliding": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"seqtk/sample": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"sourmash/compare": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"sourmash/sketch": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"spades": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"tabix/tabix": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"untar": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
},
"vcflib/vcffilter": {
"branch": "master",
"git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5",
"installed_by": ["modules"]
}
}
},
"subworkflows": {
"nf-core": {
"utils_nextflow_pipeline": {
"branch": "master",
"git_sha": "3aa0aec1d52d492fe241919f0c6100ebf0074082",
"installed_by": ["subworkflows"]
},
"utils_nfcore_pipeline": {
"branch": "master",
"git_sha": "1b6b9a3338d011367137808b49b923515080e3ba",
"installed_by": ["subworkflows"]
},
"utils_nfschema_plugin": {
"branch": "master",
"git_sha": "bbd5a41f4535a8defafe6080e00ea74c45f4f96c",
"installed_by": ["subworkflows"]
}
}
}
}
}
}