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54 lines
1.5 KiB
YAML
54 lines
1.5 KiB
YAML
name: kaiju_kaiju
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description: Taxonomic classification of metagenomic sequence data using a protein reference database
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keywords:
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- classify
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- metagenomics
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- fastq
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- taxonomic profiling
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tools:
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- kaiju:
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description: Fast and sensitive taxonomic classification for metagenomics
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homepage: https://kaiju.binf.ku.dk/
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documentation: https://github.com/bioinformatics-centre/kaiju/blob/master/README.md
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tool_dev_url: https://github.com/bioinformatics-centre/kaiju
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doi: "10.1038/ncomms11257"
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licence: ["GNU 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/fasta files of size 1 and 2 for single-end and paired-end data,
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respectively.
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pattern: "*.{fastq,fq,fasta,fa,fsa,fas,fna,fastq.gz,fq.gz,fasta.gz,fa.gz,fsa.gz,fas.gz,fna.gz}"
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- db:
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type: files
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description: |
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List containing the database and nodes files for Kaiju
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e.g. [ 'database.fmi', 'nodes.dmp' ]
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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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- results:
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type: file
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description: Results with taxonomic classification of each read
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pattern: "*.tsv"
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authors:
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- "@talnor"
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- "@sofstam"
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- "@jfy133"
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