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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>
47 lines
1.2 KiB
YAML
47 lines
1.2 KiB
YAML
name: minimap2_align
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description: A versatile pairwise aligner for genomic and spliced nucleotide sequences
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keywords:
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- align
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- fasta
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- fastq
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- genome
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- paf
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- reference
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tools:
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- minimap2:
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description: |
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A versatile pairwise aligner for genomic and spliced nucleotide sequences.
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homepage: https://github.com/lh3/minimap2
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documentation: https://github.com/lh3/minimap2#uguide
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licence: ["MIT"]
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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 FASTA or FASTQ files of size 1 and 2 for single-end
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and paired-end data, respectively.
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- reference:
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type: file
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description: |
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Reference database in FASTA format.
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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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- paf:
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type: file
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description: Alignment in PAF format
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pattern: "*.paf"
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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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- "@heuermh"
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