mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +00:00
e745e167c1
* fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
60 lines
1.6 KiB
YAML
60 lines
1.6 KiB
YAML
name: unicycler
|
|
description: Assembles bacterial genomes
|
|
keywords:
|
|
- genome
|
|
- assembly
|
|
- genome assembler
|
|
- small genome
|
|
tools:
|
|
- unicycler:
|
|
description: Hybrid assembly pipeline for bacterial genomes
|
|
homepage: https://github.com/rrwick/Unicycler
|
|
documentation: https://github.com/rrwick/Unicycler
|
|
tool_dev_url: https://github.com/rrwick/Unicycler
|
|
doi: 10.1371/journal.pcbi.1005595
|
|
licence: ["GPL v3"]
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- shortreads:
|
|
type: file
|
|
description: |
|
|
List of input Illumina FastQ files of size 1 and 2 for single-end and paired-end data,
|
|
respectively.
|
|
- longreads:
|
|
type: file
|
|
description: |
|
|
List of input FastQ files of size 1, PacBio or Nanopore long reads.
|
|
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"
|
|
- scaffolds:
|
|
type: file
|
|
description: Fasta file containing scaffolds
|
|
pattern: "*.{scaffolds.fa.gz}"
|
|
- gfa:
|
|
type: file
|
|
description: gfa file containing assembly
|
|
pattern: "*.{assembly.gfa.gz}"
|
|
- log:
|
|
type: file
|
|
description: unicycler log file
|
|
pattern: "*.{log}"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@JoseEspinosa"
|
|
- "@drpatelh"
|
|
- "@d4straub"
|