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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
1.5 KiB
YAML
51 lines
1.5 KiB
YAML
name: phyloflash
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description: phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
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keywords:
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- metagenomics
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- illumina datasets
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- phylogenetic composition
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tools:
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- phyloflash:
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description: phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
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homepage: https://hrgv.github.io/phyloFlash/
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documentation: https://hrgv.github.io/phyloFlash/usage.html
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tool_dev_url: https://github.com/HRGV/phyloFlash
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doi: "10.1128/mSystems.00920-20"
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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: Channel containing single or paired-end reads
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pattern: "*.{fastq.gz,fq.gz}"
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- sliva_db:
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type: folder
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description: Folder containing the SILVA database
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pattern: "ref"
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- univec_db:
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type: folder
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description: Folder containing UniVec database
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pattern: "UniVec"
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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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- results:
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type: folder
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description: Folder containing the results of phyloFlash analysis
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pattern: "${prefix}*"
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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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authors:
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- "@abhi18av"
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