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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>
52 lines
1.4 KiB
YAML
52 lines
1.4 KiB
YAML
name: racon
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description: Consensus module for raw de novo DNA assembly of long uncorrected 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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- polish
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tools:
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- racon:
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description: Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads.
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homepage: https://github.com/lbcb-sci/racon
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documentation: https://github.com/lbcb-sci/racon
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tool_dev_url: https://github.com/lbcb-sci/racon
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doi: https://doi.org/10.1101/gr.214270.116
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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 FastQ files. Racon expects single end reads
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pattern: "*.{fastq,fastq.gz,fq,fq.gz}"
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- assembly:
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type: file
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description: Genome assembly to be improved
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pattern: "*.{fasta,fa}"
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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"
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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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- improved_assembly:
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type: file
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description: Improved genome assembly
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pattern: "*_assembly_consensus.fasta.gz"
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authors:
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- "@avantonder"
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