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https://github.com/MillironX/nf-core_modules.git
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56 lines
1.5 KiB
YAML
56 lines
1.5 KiB
YAML
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name: "gappa_examineassign"
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description: assigns taxonomy to query sequences in phylogenetic placement output
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keywords:
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- phylogeny
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- phylogenetic placement
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- classification
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- taxonomy
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tools:
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- "gappa":
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description: "Genesis Applications for Phylogenetic Placement Analysis"
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homepage: "https://github.com/lczech/gappa"
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documentation: "https://github.com/lczech/gappa/wiki"
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tool_dev_url: "https://github.com/lczech/gappa"
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doi: "https://doi.org/10.1093/bioinformatics/btaa070"
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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' ]
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- jplace:
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type: file
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description: jplace file output from phylogenetic placement, e.g. EPA-NG, gzipped or not
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pattern: "*.{jplace,jplace.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' ]
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- examineassign:
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type: directory
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description: Execution directory
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- profile:
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type: file
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description: profile tsv file
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pattern: "*profile.tsv"
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- labelled_tree:
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type: file
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description: labelled tree in newick format
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pattern: "*labelled_tree.newick"
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- per_query:
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type: file
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description: per query taxonomy assignments in tsv format
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pattern: "*per_query.tsv"
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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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- "@erikrikarddaniel"
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