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24f0bdd14e
* added module seqkit replace * added when * removed extra line * Update modules/seqkit/replace/main.nf Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com> * Updated meta * updated indents Co-authored-by: Cipriano <rrn8@cdc.gov> Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com> Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com>
41 lines
1.1 KiB
YAML
41 lines
1.1 KiB
YAML
name: seqkit_replace
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description: Use seqkit to find/replace strings within sequences and sequence headers
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keywords:
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- seqkit
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- replace
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tools:
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- seqkit:
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description: Cross-platform and ultrafast toolkit for FASTA/Q file manipulation, written by Wei Shen.
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homepage: https://bioinf.shenwei.me/seqkit/usage/
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documentation: https://bioinf.shenwei.me/seqkit/usage/
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tool_dev_url: https://github.com/shenwei356/seqkit/
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doi: "10.1371/journal.pone.016396"
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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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- fastx:
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type: file
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description: fasta/q file
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pattern: "*.{fasta,fastq,fa,fq,fas,fna,faa}*"
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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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- fastx:
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type: file
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description: fasta/q file with replaced values
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pattern: "*.{fasta,fastq,fa,fq,fas,fna,faa}*"
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authors:
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- "@mjcipriano"
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