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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>
53 lines
1.5 KiB
YAML
53 lines
1.5 KiB
YAML
name: malt_run
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description: MALT, an acronym for MEGAN alignment tool, is a sequence alignment and analysis tool designed for processing high-throughput sequencing data, especially in the context of metagenomics.
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keywords:
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- malt
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- alignment
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- metagenomics
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- ancient DNA
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- aDNA
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- palaeogenomics
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- archaeogenomics
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- microbiome
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tools:
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- malt:
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description: A tool for mapping metagenomic data
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homepage: https://www.wsi.uni-tuebingen.de/lehrstuehle/algorithms-in-bioinformatics/software/malt/
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documentation: https://software-ab.informatik.uni-tuebingen.de/download/malt/manual.pdf
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tool_dev_url: None
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doi: "10.1038/s41559-017-0446-6"
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licence: ["GPL v3"]
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input:
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- fastqs:
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type: file
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description: Input FASTQ files
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pattern: "*.{fastq.gz,fq.gz}"
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- mode:
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type: string
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description: Program mode
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pattern: "Unknown|BlastN|BlastP|BlastX|Classifier"
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- index:
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type: directory
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description: Index/database directory from malt-build
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pattern: "*/"
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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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- rma6:
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type: file
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description: MEGAN6 RMA6 file
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pattern: "*.rma6"
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- sam:
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type: file
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description: Alignment files in Tab, Text or MEGAN-compatible SAM format
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pattern: "*.{tab,txt,sam}"
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- log:
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type: file
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description: Log of verbose MALT stdout
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pattern: "malt-run.log"
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authors:
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- "@jfy133"
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