2021-11-21 19:43:58 +00:00
|
|
|
name: phyloflash
|
|
|
|
|
description: phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
|
|
|
|
|
keywords:
|
|
|
|
|
- metagenomics
|
|
|
|
|
- illumina datasets
|
|
|
|
|
- phylogenetic composition
|
|
|
|
|
tools:
|
|
|
|
|
- phyloflash:
|
|
|
|
|
description: phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
|
|
|
|
|
|
|
|
|
|
homepage: https://hrgv.github.io/phyloFlash/
|
|
|
|
|
documentation: https://hrgv.github.io/phyloFlash/usage.html
|
|
|
|
|
tool_dev_url: https://github.com/HRGV/phyloFlash
|
|
|
|
|
doi: "10.1128/mSystems.00920-20"
|
2022-02-15 11:15:27 +00:00
|
|
|
licence: ["GPL v3"]
|
2021-11-21 19:43:58 +00:00
|
|
|
|
|
|
|
|
input:
|
|
|
|
|
- meta:
|
|
|
|
|
type: map
|
|
|
|
|
description: |
|
|
|
|
|
Groovy Map containing sample information
|
|
|
|
|
e.g. [ id:'test', single_end:false ]
|
|
|
|
|
- reads:
|
|
|
|
|
type: file
|
|
|
|
|
description: Channel containing single or paired-end reads
|
|
|
|
|
pattern: "*.{fastq.gz,fq.gz}"
|
|
|
|
|
- sliva_db:
|
|
|
|
|
type: folder
|
|
|
|
|
description: Folder containing the SILVA database
|
|
|
|
|
pattern: "ref"
|
|
|
|
|
- univec_db:
|
|
|
|
|
type: folder
|
|
|
|
|
description: Folder containing UniVec database
|
|
|
|
|
pattern: "UniVec"
|
|
|
|
|
|
|
|
|
|
output:
|
|
|
|
|
- meta:
|
|
|
|
|
type: map
|
|
|
|
|
description: |
|
|
|
|
|
Groovy Map containing sample information
|
|
|
|
|
e.g. [ id:'test', single_end:false ]
|
|
|
|
|
- results:
|
|
|
|
|
type: folder
|
|
|
|
|
description: Folder containing the results of phyloFlash analysis
|
|
|
|
|
pattern: "${prefix}*"
|
|
|
|
|
- versions:
|
|
|
|
|
type: file
|
|
|
|
|
description: File containing software versions
|
|
|
|
|
pattern: "versions.yml"
|
|
|
|
|
authors:
|
|
|
|
|
- "@abhi18av"
|
