nf-core_modules/modules/amps/meta.yml

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name: amps
description: Post-processing script of the MaltExtract component of the HOPS package
keywords:
- malt
- MaltExtract
- HOPS
- amps
- alignment
- metagenomics
- ancient DNA
- aDNA
- palaeogenomics
- archaeogenomics
- microbiome
- authentication
- damage
- edit distance
- post Post-processing
- visualisation
tools:
- amps:
description: Post-processing script of the MaltExtract tool for ancient metagenomics
homepage: "https://github.com/rhuebler/HOPS"
documentation: "https://github.com/keyfm/amps"
tool_dev_url: "https://github.com/keyfm/amps"
doi: "10.1186/s13059-019-1903-0"
licence: ["GPL >=3"]
input:
- maltextract_results:
type: directory
description: MaltExtract output directory
pattern: "results/"
- taxon_list:
type: file
description: List of target taxa to evaluate used in MaltExtract
pattern: "*.txt"
- filter:
type: string
description: The filter mode used in MaltExtract
pattern: "def_anc|default|scan|ancient|crawl"
output:
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- json:
type: file
description: Candidate summary heatmap in MultiQC compatible JSON format
pattern: "heatmap_overview_Wevid.json"
- summary_pdf:
type: file
description: Candidate summary heatmap in PDF format
pattern: "heatmap_overview_Wevid.pdf"
- tsv:
type: file
description: Candidate summary heatmap in TSV format
pattern: "heatmap_overview_Wevid.tsv"
- candidate_pdfs:
type: directory
description: Directory of per sample output PDFs organised by reference
pattern: "pdf_candidate_profiles/"
authors:
- "@jfy133"