nf-core_modules/modules/abacas/meta.yml

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name: abacas
description: contiguate draft genome assembly
keywords:
- genome
- assembly
- contiguate
tools:
- abacas:
description: |
ABACAS is intended to rapidly contiguate (align, order, orientate),
visualize and design primers to close gaps on shotgun assembled
contigs based on a reference sequence.
homepage: http://abacas.sourceforge.net/documentation.html
documentation: http://abacas.sourceforge.net/documentation.html
tool_dev_url: None
doi: "10.1093/bioinformatics/btp347"
licence: ['GPL v2-or-later']
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- scaffold:
type: file
description: Fasta file containing scaffold
pattern: "*.{fasta,fa}"
- fasta:
type: file
description: FASTA reference file
pattern: "*.{fasta,fa}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- results:
type: files
description: |
List containing abacas output files
[ 'test.abacas.bin', 'test.abacas.fasta', 'test.abacas.gaps',
'test.abacas.gaps.tab', 'test.abacas.nucmer.delta',
'test.abacas.nucmer.filtered.delta', 'test.abacas.nucmer.tiling',
'test.abacas.tab', 'test.abacas.unused.contigs.out',
'test.abacas.MULTIFASTA.fa' ]
pattern: "*.{abacas}*"
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors:
- "@joseespinosa"
- "@drpatelh"