nf-core_modules/modules/iqtree/meta.yml

name: iqtree
description: Produces a Newick format phylogeny from a multiple sequence alignment using the maxium likelihood algorithm. Capable of bacterial genome size alignments.
keywords:
  - phylogeny
  - newick
  - maximum likelihood
tools:
  - iqtree:
      description: Efficient phylogenomic software by maximum likelihood.
      homepage: http://www.iqtree.org
      documentation: http://www.iqtree.org/doc
      tool_dev_url: https://github.com/iqtree/iqtree2
      doi: doi.org/10.1093/molbev/msaa015
      licence: ["GPL v2-or-later"]

input:
  - alignment:
      type: file
      description: A FASTA format multiple sequence alignment file
      pattern: "*.{fasta,fas,fa,mfa}"

output:
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - phylogeny:
      type: file
      description: A phylogeny in Newick format
      pattern: "*.{treefile}"

authors:
  - "@avantonder"
  - "@aunderwo"
add new iqtree module (#427) * add new iqtree module * Resolve suggests after PR review * add newline to functions 2021-04-12 08:45:56 +00:00			`name: iqtree`
			`description: Produces a Newick format phylogeny from a multiple sequence alignment using the maxium likelihood algorithm. Capable of bacterial genome size alignments.`
			`keywords:`
			`- phylogeny`
			`- newick`
			`- maximum likelihood`
			`tools:`
			`- iqtree:`
			`description: Efficient phylogenomic software by maximum likelihood.`
			`homepage: http://www.iqtree.org`
			`documentation: http://www.iqtree.org/doc`
			`tool_dev_url: https://github.com/iqtree/iqtree2`
			`doi: doi.org/10.1093/molbev/msaa015`
Fix formatting in yaml files, add yamllint config (#1279) * 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> 2022-02-15 11:15:27 +00:00			`licence: ["GPL v2-or-later"]`
add new iqtree module (#427) * add new iqtree module * Resolve suggests after PR review * add newline to functions 2021-04-12 08:45:56 +00:00
			`input:`
			`- alignment:`
			`type: file`
			`description: A FASTA format multiple sequence alignment file`
			`pattern: "*.{fasta,fas,fa,mfa}"`

			`output:`
Update versions key in meta.yml for all modules (#787) 2021-10-03 07:20:26 +00:00			`- versions:`
add new iqtree module (#427) * add new iqtree module * Resolve suggests after PR review * add newline to functions 2021-04-12 08:45:56 +00:00			`type: file`
Update versions key in meta.yml for all modules (#787) 2021-10-03 07:20:26 +00:00			`description: File containing software versions`
Bulk update modules to use versions.yml (#739) * 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> 2021-09-27 08:41:24 +00:00			`pattern: "versions.yml"`
add new iqtree module (#427) * add new iqtree module * Resolve suggests after PR review * add newline to functions 2021-04-12 08:45:56 +00:00			`- phylogeny:`
			`type: file`
			`description: A phylogeny in Newick format`
			`pattern: "*.{treefile}"`

			`authors:`
			`- "@avantonder"`
			`- "@aunderwo"`