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240ee4328c
* fix: remove left-over unnecessary code * Make gzipping optional for DAS_Tool scaffolds2bin * Add optional unzipping * Make gunzip optional for DAS_Tool scaffolds2bin * Apply suggestions from code review Co-authored-by: Daniel Straub <42973691+d4straub@users.noreply.github.com> * Update modules/dastool/scaffolds2bin/meta.yml Co-authored-by: Daniel Straub <42973691+d4straub@users.noreply.github.com>
55 lines
1.6 KiB
YAML
55 lines
1.6 KiB
YAML
name: dastool_scaffolds2bin
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description: Helper script to convert a set of bins in fasta format to tabular scaffolds2bin format
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keywords:
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- binning
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- das tool
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- table
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- de novo
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- bins
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- contigs
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- assembly
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- das_tool
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tools:
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- dastool:
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description: |
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DAS Tool is an automated method that integrates the results
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of a flexible number of binning algorithms to calculate an optimized, non-redundant
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set of bins from a single assembly.
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homepage: https://github.com/cmks/DAS_Tool
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documentation: https://github.com/cmks/DAS_Tool
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tool_dev_url: https://github.com/cmks/DAS_Tool
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doi: "10.1038/s41564-018-0171-1"
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licence: ["BSD"]
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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: Fasta or list of fasta files recommended to be gathered via with .collect() of bins
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pattern: "*.{fa,fa.gz,fas,fas.gz,fna,fna.gz,fasta,fasta.gz}"
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- extension:
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type: val
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description: Fasta file extension (fa | fas | fasta | ...), but without .gz suffix, even if gzipped input.
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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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- scaffolds2bin:
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type: file
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description: tabular scaffolds2bin file for DAS tool input
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pattern: "*.scaffolds2bin.tsv"
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authors:
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- "@maxibor"
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