nf-core_modules/modules/tbprofiler/profile/meta.yml

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name: tbprofiler_profile
description: A tool to detect resistance and lineages of M. tuberculosis genomes
keywords:
- Mycobacterium tuberculosis
- resistance
- serotype
tools:
- tbprofiler:
description: Profiling tool for Mycobacterium tuberculosis to detect drug resistance and lineage from WGS data
homepage: https://github.com/jodyphelan/TBProfiler
documentation: https://jodyphelan.gitbook.io/tb-profiler/
tool_dev_url: https://github.com/jodyphelan/TBProfiler
doi: "10.1186/s13073-019-0650-x"
licence: ['GPL v3']
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: file
description: FASTQ file
pattern: "*.{fastq.gz,fq.gz}"
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"
- bam:
type: file
description: BAM file with alignment details
pattern: "*.bam"
- csv:
type: file
description: Optional CSV formated result file of resistance and strain type
pattern: "*.csv"
- json:
type: file
description: JSON formated result file of resistance and strain type
pattern: "*.json"
- txt:
type: file
description: Optional text file of resistance and strain type
pattern: "*.txt"
- vcf:
type: file
description: VCF with variant info again refernce genomes
pattern: "*.vcf"
authors:
- "@rpetit3"