mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
906577873b
* New functions.nf * Convert code to create versions.yml * Update meta.yml * update output channel * Fix more meta.yml * Manually update remaining modules * remove superflous echo * Fix misformatted meta.yml files * Fix yaml, was list instead of dict * fix version for bcftools Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
56 lines
2 KiB
YAML
56 lines
2 KiB
YAML
name: muscle
|
|
description: MUSCLE is a program for creating multiple alignments of amino acid or nucleotide sequences. A range of options are provided that give you the choice of optimizing accuracy, speed, or some compromise between the two
|
|
keywords:
|
|
- msa
|
|
- multiple sequence alignment
|
|
tools:
|
|
- muscle:
|
|
description: MUSCLE is a multiple sequence alignment tool with high accuracy and throughput
|
|
homepage: https://www.drive5.com/muscle
|
|
documentation: http://www.drive5.com/muscle/muscle.html#_Toc81224840
|
|
doi: "https://pubmed.ncbi.nlm.nih.gov/15034147/"
|
|
licence: ['http://www.drive5.com/muscle/manual/license.html']
|
|
input:
|
|
- fasta:
|
|
type: file
|
|
description: Input sequences for alignment must be in FASTA format
|
|
pattern: "*.{fasta,fa,fna}"
|
|
output:
|
|
- aligned_fasta:
|
|
type: file
|
|
description: Multiple sequence alignment produced in FASTA format
|
|
pattern: "*.{afa}"
|
|
- msf:
|
|
type: file
|
|
description: GCG Multiple Sequence File (MSF) alignment format (similar to CLUSTALW)
|
|
pattern: "*.{msf}"
|
|
- clustalw:
|
|
type: file
|
|
description: Multiple sequence alignment produced in ClustalW format without base/residue numbering
|
|
pattern: "*.{clw}"
|
|
- phyi:
|
|
type: file
|
|
description: Multiple sequence alignment produced in PHYLIP interleaved format
|
|
pattern: "*.{phyi}"
|
|
- phys:
|
|
type: file
|
|
description: Multiple sequence alignment produced in PHYLIP sequential format
|
|
pattern: "*.{phys}"
|
|
- html:
|
|
type: file
|
|
description: Multiple sequence alignment produced in HTML format
|
|
pattern: "*.{html}"
|
|
- tree:
|
|
type: file
|
|
description: NJ or UPGMA tree in Newick format produced from a multiple sequence alignment
|
|
pattern: "*.{tree}"
|
|
- log:
|
|
type: file
|
|
description: Log file of MUSCLE run
|
|
pattern: "*{.log}"
|
|
- version:
|
|
type: file
|
|
description: File containing MUSCLE software version
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@MGordon"
|