mirror of
https://github.com/MillironX/taxprofiler.git
synced 2024-11-25 01:59:55 +00:00
66 lines
1.8 KiB
YAML
Generated
66 lines
1.8 KiB
YAML
Generated
name: centrifuge_centrifuge
|
|
description: Classifies metagenomic sequence data
|
|
keywords:
|
|
- classify
|
|
- metagenomics
|
|
- fastq
|
|
- db
|
|
tools:
|
|
- centrifuge:
|
|
description: Centrifuge is a classifier for metagenomic sequences.
|
|
homepage: https://ccb.jhu.edu/software/centrifuge/
|
|
documentation: https://ccb.jhu.edu/software/centrifuge/manual.shtml
|
|
doi: 10.1101/gr.210641.116
|
|
licence: ["GPL v3"]
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- reads:
|
|
type: file
|
|
description: |
|
|
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
|
|
respectively.
|
|
- db:
|
|
type: directory
|
|
description: Path to directory containing centrifuge database files
|
|
- save_unaligned:
|
|
type: value
|
|
description: If true unmapped fastq files are saved
|
|
- save_aligned:
|
|
type: value
|
|
description: If true mapped fastq files are saved
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- report:
|
|
type: file
|
|
description: |
|
|
File containing a classification summary
|
|
pattern: "*.{report.txt}"
|
|
- results:
|
|
type: file
|
|
description: |
|
|
File containing classification results
|
|
pattern: "*.{results.txt}"
|
|
- fastq_unmapped:
|
|
type: file
|
|
description: Unmapped fastq files
|
|
pattern: "*.unmapped.fastq.gz"
|
|
- fastq_mapped:
|
|
type: file
|
|
description: Mapped fastq files
|
|
pattern: "*.mapped.fastq.gz"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@sofstam"
|
|
- "@jfy133"
|
|
- "@sateeshperi"
|