mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +00:00
69 lines
2.1 KiB
YAML
69 lines
2.1 KiB
YAML
name: busco
|
|
description: Benchmarking Universal Single Copy Orthologs
|
|
keywords:
|
|
- quality control
|
|
- genome
|
|
- transcriptome
|
|
- proteome
|
|
tools:
|
|
- busco:
|
|
description: BUSCO provides measures for quantitative assessment of genome assembly, gene set, and transcriptome completeness based on evolutionarily informed expectations of gene content from near-universal single-copy orthologs selected from OrthoDB.
|
|
homepage: https://busco.ezlab.org/
|
|
documentation: https://busco.ezlab.org/busco_userguide.html
|
|
tool_dev_url: https://gitlab.com/ezlab/busco
|
|
doi: "10.1007/978-1-4939-9173-0_14"
|
|
licence: ["MIT"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- fasta:
|
|
type: file
|
|
description: Nucleic or amino acid sequence file in FASTA format.
|
|
pattern: "*.{fasta,fna,fa,fasta.gz,fna.gz,fa.gz}"
|
|
- lineage:
|
|
type: value
|
|
description: The BUSCO lineage to use, or "auto" to automatically select lineage
|
|
- busco_lineages_path:
|
|
type: directory
|
|
description: Path to local BUSCO lineages directory.
|
|
- config_file:
|
|
type: file
|
|
description: Path to BUSCO config file.
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- batch_summary:
|
|
type: file
|
|
description: Summary of all sequence files analyzed
|
|
pattern: "*-busco.batch_summary.txt"
|
|
- short_summaries_txt:
|
|
type: file
|
|
description: Short Busco summary in plain text format
|
|
pattern: "short_summary.*.txt"
|
|
- short_summaries_json:
|
|
type: file
|
|
description: Short Busco summary in JSON format
|
|
pattern: "short_summary.*.json"
|
|
- busco_dir:
|
|
type: directory
|
|
description: BUSCO lineage specific output
|
|
pattern: "*-busco"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
|
|
authors:
|
|
- "@priyanka-surana"
|
|
- "@charles-plessy"
|
|
- "@mahesh-panchal"
|
|
- "@muffato"
|
|
- "@jvhagey"
|