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* Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml
55 lines
1.5 KiB
YAML
55 lines
1.5 KiB
YAML
name: unicycler
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description: Assembles bacterial genomes
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keywords:
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- genome
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- assembly
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- genome assembler
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- small genome
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tools:
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- unicycler:
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description: Hybrid assembly pipeline for bacterial genomes
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homepage: https://github.com/rrwick/Unicycler
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documentation: https://github.com/rrwick/Unicycler
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tool_dev_url: https://github.com/rrwick/Unicycler
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doi: 10.1371/journal.pcbi.1005595
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licence: ['GPL v3']
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- reads:
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type: file
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description: |
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List of input FastQ files of size 1 and 2 for single-end and paired-end data,
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respectively.
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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- scaffolds:
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type: file
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description: Fasta file containing scaffolds
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pattern: "*.{scaffolds.fa}"
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- gfa:
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type: file
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description: gfa file containing assembly
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pattern: "*.{assembly.gfa}"
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- log:
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type: file
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description: unicycler log file
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pattern: "*.{log}"
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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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authors:
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- "@JoseEspinosa"
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- "@drpatelh"
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