nf-core_modules/modules/rtgtools/vcfeval/meta.yml
Nicolas Vannieuwkerke f6262b4a10 fixed some issues
2022-05-09 15:47:07 +02:00

63 lines
1.8 KiB
YAML

name: "rtgtools_vcfeval"
description: The VCFeval tool of RTG tools. It is used to evaluate called variants for agreement with a baseline variant set
keywords:
- benchmarking
- vcf
- rtg-tools
tools:
- "rtgtools":
description: "RealTimeGenomics Tools -- Utilities for accurate VCF comparison and manipulation"
homepage: "https://www.realtimegenomics.com/products/rtg-tools"
documentation: "https://github.com/RealTimeGenomics/rtg-tools"
tool_dev_url: "https://github.com/RealTimeGenomics/rtg-tools"
doi: ""
licence: "['BSD']"
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- truth_vcf:
type: file
description: A standard VCF to compare against
pattern: "*.{vcf,vcf.gz}"
- truth_vcf_index:
type: file
description: The index of the standard VCF (optional)
pattern: "*.tbi"
- query_vcf:
type: file
description: A VCF with called variants to benchmark against the standard
pattern: "*.{vcf,vcf.gz}"
- query_vcf_index:
type: file
description: The index of the called VCF (optional)
pattern: "*.tbi"
- bed:
type: file
description: The BED file of the called VCF
pattern: "*.bed"
- sdf:
type: file
description: The SDF (RTG Sequence Data File) folder of the reference genome
pattern: "*"
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"
- results:
type: file
description: A text file containing the results of the benchmark
pattern: "*.txt"
authors:
- "@nvnieuwk"