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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>
34 lines
926 B
YAML
34 lines
926 B
YAML
name: bedtools_getfasta
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description: extract sequences in a FASTA file based on intervals defined in a feature file.
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keywords:
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- bed
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- fasta
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- getfasta
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tools:
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- bedtools:
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description: |
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A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types.
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documentation: https://bedtools.readthedocs.io/en/latest/content/tools/intersect.html
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licence: ["MIT"]
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input:
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- bed:
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type: file
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description: Bed feature file
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pattern: "*.{bed}"
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- fasta:
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type: file
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description: Input fasta file
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pattern: "*.{fa,fasta}"
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output:
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- fasta:
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type: file
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description: Output fasta file with extracted sequences
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pattern: "*.{fa}"
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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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- "@joseespinosa"
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- "@drpatelh"
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