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84cb78cc98
* Templates for new module * pe only test passing * only_pe and only_se passing * only_pe, only_se, mixed passes * Multiple pe + se tc passes * Passing args works * Add 'interleaved' to description * Fixed linting message * Update modules/khmer/normalizebymedian/main.nf Good point. Co-authored-by: Daniel Straub <42973691+d4straub@users.noreply.github.com> * Update meta.yml Co-authored-by: Daniel Straub <42973691+d4straub@users.noreply.github.com>
39 lines
1.2 KiB
YAML
39 lines
1.2 KiB
YAML
name: khmer_normalizebymedian
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description: Module that calls normalize-by-median.py from khmer. The module can take a mix of paired end (interleaved) and single end reads. If both types are provided, only a single file with single ends is possible.
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keywords:
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- digital normalization
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- khmer
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tools:
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- khmer:
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description: khmer k-mer counting library
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homepage: https://github.com/dib-lab/khmer
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documentation: https://khmer.readthedocs.io/en/latest/
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tool_dev_url: https://github.com/dib-lab/khmer
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doi: "https://doi.org/10.12688/f1000research.6924.1"
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licence: ['BSD License']
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input:
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- pe_reads:
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type: files
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description: Paired-end interleaved fastq files
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pattern: "*.{fq,fastq}.gz"
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- se_reads:
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type: files
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description: Single-end fastq files
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pattern: "*.{fq,fastq}.gz"
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- name:
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type: string
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description: filename for output file(s); ".fastq.gz" will be appended
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output:
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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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- reads:
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type: file
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description: Interleaved fastq files
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pattern: "*.{fq,fastq}.gz"
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authors:
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- "@erikrikarddaniel"
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