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"