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378fa5fbb4
* initial version of gamma module * remove trailing whitespace * prettier fix * hardcode version number * Update modules/gamma/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/gamma/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/gamma/meta.yml Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com> * update meta and prettier * add whitespaces * add fasta output and tests Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com> Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
63 lines
1.5 KiB
YAML
63 lines
1.5 KiB
YAML
name: "gamma"
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description: Gene Allele Mutation Microbial Assessment
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keywords:
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- gamma
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- gene-calling
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tools:
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- "gamma":
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description: "Tool for Gene Allele Mutation Microbial Assessment"
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homepage: "https://github.com/rastanton/GAMMA"
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documentation: "https://github.com/rastanton/GAMMA"
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tool_dev_url: "https://github.com/rastanton/GAMMA"
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doi: "10.1093/bioinformatics/btab607"
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licence: "['Apache License 2.0']"
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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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- fasta:
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type: file
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description: FASTA file
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pattern: "*.{fa,fasta}"
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- db:
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type: file
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description: Database in FASTA format
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pattern: "*.{fa,fasta}"
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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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- gamma:
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type: file
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description: GAMMA file with annotated gene matches
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pattern: "*.{gamma}"
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- psl:
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type: file
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description: PSL file with all gene matches found
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pattern: "*.{psl}"
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- gff:
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type: file
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description: GFF file
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pattern: "*.{gff}"
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- fasta:
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type: file
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description: multifasta file of the gene matches
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pattern: "*.{fasta}"
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authors:
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- "@sateeshperi"
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- "@rastanton"
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