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3aacd46da2
* backfilled modules with meta.yml that had no license identifier * harmonized BSD license names * whitespace linting at modules/unzip/meta.yml:12 * harmonized software from US NIH-NCBI/NIST to 'US-Government-Work' * Update modules/bcftools/index/meta.yml `bcftools` is dual-licensed, use associative array to allow for multiple licenses Co-authored-by: Michael L Heuer <heuermh@acm.org> Co-authored-by: Michael L Heuer <heuermh@acm.org>
58 lines
1.5 KiB
YAML
58 lines
1.5 KiB
YAML
name: methyldackel_extract
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description: Extracts per-base methylation metrics from alignments
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keywords:
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- methylation
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- 5mC
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- methylseq
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- bisulphite
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- consensus
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- bedGraph
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- bam
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- cram
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tools:
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- methyldackel:
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description: |
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A (mostly) universal methylation extractor
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for BS-seq experiments.
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homepage: https://github.com/brentp/bwa-meth
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documentation: https://github.com/brentp/bwa-meth
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arxiv: arXiv:1401.1129
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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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- fasta:
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type: file
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description: Input genome fasta file
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pattern: "*.{fasta,fa}"
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- fai:
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type: file
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description: FASTA index file
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pattern: "*.{fai}"
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- bam:
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type: file
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description: BAM/CRAM file
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pattern: "*.{bam,cram}"
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- bai:
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type: file
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description: BAM/CRAM index file
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pattern: "*.{bai,crai}"
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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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- bedgraph:
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type: file
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description: bedGraph file containing per-base methylation metrics
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pattern: "*.{bedGraph}"
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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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- "@phue"
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