mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
59 lines
1.8 KiB
YAML
59 lines
1.8 KiB
YAML
name: "ampir"
|
|
description: A fast and user-friendly method to predict antimicrobial peptides (AMPs) from any given size protein dataset. ampir uses a supervised statistical machine learning approach to predict AMPs.
|
|
keywords:
|
|
- ampir
|
|
- amp
|
|
- antimicrobial peptide prediction
|
|
tools:
|
|
- "ampir":
|
|
description: "A toolkit to predict antimicrobial peptides from protein sequences on a genome-wide scale."
|
|
homepage: "https://github.com/Legana/ampir"
|
|
documentation: "https://cran.r-project.org/web/packages/ampir/index.html"
|
|
tool_dev_url: "https://github.com/Legana/ampir"
|
|
doi: "10.1093/bioinformatics/btaa653"
|
|
licence: ["GPL v2"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- faa:
|
|
type: file
|
|
description: FASTA file containing amino acid sequences
|
|
pattern: "*.{faa,fasta}"
|
|
- model:
|
|
type: value
|
|
description: Built-in model for AMP prediction
|
|
pattern: "{precursor,mature}"
|
|
- min_length:
|
|
type: value
|
|
description: Minimum protein length for which predictions will be generated
|
|
pattern: "[0-9]+"
|
|
- min_probability:
|
|
type: value
|
|
description: Cut-off for AMP prediction
|
|
pattern: "[0-9][0-9]"
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- amps_faa:
|
|
type: file
|
|
description: File containing AMP predictions in amino acid FASTA format
|
|
pattern: "*.{faa}"
|
|
- amps_tsv:
|
|
type: file
|
|
description: File containing AMP predictions in TSV format
|
|
pattern: "*.tsv"
|
|
|
|
authors:
|
|
- "@jasmezz"
|