mirror of
https://github.com/MillironX/taxprofiler.git
synced 2024-11-22 16:29:55 +00:00
65 lines
1.9 KiB
YAML
Generated
65 lines
1.9 KiB
YAML
Generated
name: "motus_profile"
|
|
description: Taxonomic meta-omics profiling using universal marker genes
|
|
keywords:
|
|
- classify
|
|
- metagenomics
|
|
- fastq
|
|
- taxonomic profiling
|
|
tools:
|
|
- "motus":
|
|
description: "Marker gene-based OTU (mOTU) profiling"
|
|
homepage: "https://motu-tool.org/"
|
|
documentation: "https://github.com/motu-tool/mOTUs/wiki"
|
|
tool_dev_url: "https://github.com/motu-tool/mOTUs"
|
|
doi: "10.1186/s40168-022-01410-z"
|
|
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/fasta files of size 1 and 2 for single-end and paired-end data,
|
|
respectively.
|
|
Or the intermediate bam file mapped by bwa to the mOTUs database or
|
|
the output bam file from motus profile.
|
|
Or the intermediate mgc read counts table.
|
|
pattern: "*.{fastq,fq,fasta,fa,fastq.gz,fq.gz,fasta.gz,fa.gz,.bam,.mgc}"
|
|
- db:
|
|
type: directory
|
|
description: |
|
|
mOTUs database downloaded by `motus downloadDB`
|
|
|
|
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"
|
|
- out:
|
|
type: file
|
|
description: Results with taxonomic classification of each read
|
|
pattern: "*.out"
|
|
- bam:
|
|
type: file
|
|
description: Optional intermediate sorted BAM file from BWA
|
|
pattern: "*.{bam}"
|
|
- mgc:
|
|
type: file
|
|
description: Optional intermediate mgc read count table file saved with `-M`.
|
|
pattern: "*.{mgc}"
|
|
- log:
|
|
type: file
|
|
description: Standard error logging file containing summary statistics
|
|
pattern: "*.log"
|
|
|
|
authors:
|
|
- "@jianhong"
|