name: raxmlng
description: RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion.
keywords:
  - phylogeny
  - newick
  - maximum likelihood
tools:
  - raxmlng:
      description: RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion.
      homepage: https://github.com/amkozlov/raxml-ng
      documentation: https://github.com/amkozlov/raxml-ng/wiki
      tool_dev_url: https://github.com/amkozlov/raxml-ng
      doi: doi.org/10.1093/bioinformatics/btz305
      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: "*.{raxml.bestTree}"
  - phylogeny_bootstrapped:
      type: file
      description: A phylogeny in Newick format with bootstrap values
      pattern: "*.{raxml.support}"

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