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e745e167c1
* fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
51 lines
1.3 KiB
YAML
51 lines
1.3 KiB
YAML
name: miniasm
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description: A very fast OLC-based de novo assembler for noisy long reads
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keywords:
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- assembly
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- pacbio
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- nanopore
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tools:
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- miniasm:
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description: Ultrafast de novo assembly for long noisy reads (though having no consensus step)
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homepage: https://github.com/lh3/miniasm
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documentation: https://github.com/lh3/miniasm
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tool_dev_url: https://github.com/lh3/miniasm
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doi: "10.1093/bioinformatics/btw152"
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licence: ["MIT"]
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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: List of input PacBio/ONT FastQ files.
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pattern: "*.{fastq,fastq.gz,fq,fq.gz}"
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- paf:
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type: file
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description: Alignment in PAF format
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pattern: "*{.paf,.paf.gz}"
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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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- versions:
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type: file
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description: File containing software versions
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pattern: "versions.yml"
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- gfa:
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type: file
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description: Assembly graph
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pattern: "*.gfa.gz"
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- assembly:
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type: file
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description: Genome assembly
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pattern: "*.fasta.gz"
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authors:
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- "@avantonder"
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