Klados

Klados allows users to curate phyloreferences side-by-side with the phylogenies they were originally defined on. The curated phylogenies are stored in the Phyx format, which can be downloaded as an OWL 2 ontology in the JSON-LD format. Phyx files can be incorporated into the Clade Ontology.

Citing Klados

You can currently cite Klados as:

Vaidya G, Becker A, Cellinese N, Lapp H (2023) Klados: a tool for authoring, testing and curating phyloreferences. GitHub: https://github.com/phyloref/klados DOI: 10.5281/zenodo.7103131

Project setup

npm install

Compiles and hot-reloads for development

npm run dev

This serves Klados at http://localhost:5173/klados/.

Compiles and minifies for production

npm run build

This writes the compiled site into dist/, with asset paths under /klados/ (the base in vite.config.js) so it can be served from GitHub Pages. Publishing a release runs .github/workflows/deploy-to-github-pages.yml, which builds the site and deploys dist/ to the gh-pages branch. npm run preview serves the built site locally.

Run your tests

npm run test

Lints and fixes files

npm run lint

ESLint checks for code problems but not formatting, and Prettier is not run on this codebase. .prettierrc.json only keeps editors that format on save close to the existing style. See AGENTS.md.

Customize configuration

See the Vite configuration reference.