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modules.json
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modules.json
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{
"name": "plant-food-research-open/assemblyqc",
"homePage": "https://github.com/plant-food-research-open/assemblyqc",
"repos": {
"https://github.com/GallVp/nxf-components.git": {
"modules": {
"gallvp": {
"busco/busco": {
"branch": "main",
"git_sha": "92d59e5f578a2929b75f7588985b9bf451f4c370",
"installed_by": ["fasta_gxf_busco_plot"]
},
"busco/generateplot": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_gxf_busco_plot"]
},
"bwa/index": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fastq_bwa_mem_samblaster"]
},
"bwa/mem": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fastq_bwa_mem_samblaster"]
},
"cat/cat": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_ltrretriever_lai"]
},
"custom/relabelfasta": {
"branch": "main",
"git_sha": "a8939d36280e7d9037c7cf164eeede19e46546a4",
"installed_by": ["modules"]
},
"custom/restoregffids": {
"branch": "main",
"git_sha": "a8939d36280e7d9037c7cf164eeede19e46546a4",
"installed_by": ["fasta_ltrretriever_lai"]
},
"custom/shortenfastaids": {
"branch": "main",
"git_sha": "a8939d36280e7d9037c7cf164eeede19e46546a4",
"installed_by": ["fasta_ltrretriever_lai"]
},
"gffread": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_gxf_busco_plot"]
},
"gt/gff3": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["gff3_gt_gff3_gff3validator_stat"]
},
"gt/gff3validator": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["gff3_gt_gff3_gff3validator_stat"]
},
"gt/stat": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["gff3_gt_gff3_gff3validator_stat"]
},
"gunzip": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["modules"]
},
"ltrfinder": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_ltrretriever_lai"]
},
"ltrharvest": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_ltrretriever_lai"]
},
"ltrretriever/lai": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_ltrretriever_lai"]
},
"ltrretriever/ltrretriever": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_ltrretriever_lai"]
},
"minimap2/align": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["modules"]
},
"plotsr": {
"branch": "main",
"git_sha": "a8939d36280e7d9037c7cf164eeede19e46546a4",
"installed_by": ["modules"]
},
"samblaster": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fastq_bwa_mem_samblaster"]
},
"samtools/faidx": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["gff3_gt_gff3_gff3validator_stat"]
},
"seqkit/seq": {
"branch": "main",
"git_sha": "ae9714c21ede9199a3118e3c20b65484aa73e232",
"installed_by": ["fasta_ltrretriever_lai"]
},
"syri": {
"branch": "main",
"git_sha": "a8939d36280e7d9037c7cf164eeede19e46546a4",
"installed_by": ["modules"]
}
}
},
"subworkflows": {
"gallvp": {
"fasta_gxf_busco_plot": {
"branch": "main",
"git_sha": "7bf6fbca23edc94490ffa6709f52b2f71c6fb130",
"installed_by": ["subworkflows"]
},
"fasta_ltrretriever_lai": {
"branch": "main",
"git_sha": "8ec55a2c8e4ce3af070393768f6c2c57f5c34076",
"installed_by": ["subworkflows"]
},
"fastq_bwa_mem_samblaster": {
"branch": "main",
"git_sha": "775762619b57101ca800269b6ecda0b915fb9913",
"installed_by": ["subworkflows"]
},
"gff3_gt_gff3_gff3validator_stat": {
"branch": "main",
"git_sha": "92d59e5f578a2929b75f7588985b9bf451f4c370",
"installed_by": ["subworkflows"]
}
}
}
},
"https://github.com/nf-core/modules.git": {
"modules": {
"nf-core": {
"custom/sratoolsncbisettings": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["fastq_download_prefetch_fasterqdump_sratools"]
},
"fastavalidator": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"fastp": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["fastq_fastqc_umitools_fastp"]
},
"fastqc": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["fastq_fastqc_umitools_fastp"]
},
"fcs/fcsadaptor": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gfastats": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gffread": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gunzip": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"merqury/hapmers": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"merqury/merqury": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"meryl/count": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"meryl/unionsum": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"minimap2/align": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"orthofinder": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"seqkit/rmdup": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"seqkit/seq": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["fasta_explore_search_plot_tidk", "fasta_ltrretriever_lai"]
},
"seqkit/sort": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["fasta_explore_search_plot_tidk"]
},
"sratools/fasterqdump": {
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"installed_by": ["fastq_download_prefetch_fasterqdump_sratools", "modules"]
},
"sratools/prefetch": {
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["fastq_download_prefetch_fasterqdump_sratools", "modules"]
},
"tidk/explore": {
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"installed_by": ["fasta_explore_search_plot_tidk"]
},
"tidk/plot": {
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},
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},
"umitools/extract": {
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"installed_by": ["fastq_fastqc_umitools_fastp"]
},
"untar": {
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}
}
},
"subworkflows": {
"nf-core": {
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},
"fastq_download_prefetch_fasterqdump_sratools": {
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"git_sha": "1fc29f92e439d5631fdf34b8ac4687297d70f5ec",
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},
"fastq_fastqc_umitools_fastp": {
"branch": "master",
"git_sha": "46eca555142d6e597729fcb682adcc791796f514",
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},
"utils_nextflow_pipeline": {
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},
"utils_nfcore_pipeline": {
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"installed_by": ["subworkflows"]
},
"utils_nfschema_plugin": {
"branch": "master",
"git_sha": "bbd5a41f4535a8defafe6080e00ea74c45f4f96c",
"installed_by": ["subworkflows"]
}
}
}
}
}
}