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It features a\nvisualization grammar inspired by [Vega-Lite](https://vega.github.io/vega-lite/)\nand a high-performance, WebGL-powered graphics renderer.\n\nDocumentation and examples can be found at https://genomespy.app/\n\n## Monorepo\n\nGenomeSpy is split into several [packages](./packages/), two of which, core and\napp, are the most important:\n\n### Core\n\nThe [core](./packages/core/) library provides the visualization grammar and a\nWebGL-powered rendering engine.\n\n### Cohort App\n\nThe [app](./packages/app/) builds upon the core, extending the visualization\ngrammar with support for faceting multiple (up to thousands of) patient samples.\nIt provides a user interface for interactive analysis of the samples, which can\nbe filtered, sorted, and grouped flexibly. The app includes session handling\nwith provenance, URL hashes, and bookmarks.\n\n### Embed Examples\n\nThe [embed-examples](./packages/embed-examples/) package contains examples of\nhow to embed GenomeSpy in web applications and use the\n[API](https://genomespy.app/docs/api/) for advanced use cases.\n\n## Contributing\n\n### Bootstrapping and running\n\n1. `git clone git@github.com:genome-spy/genome-spy.git`\n2. `cd genome-spy`\n3. `npm install` (use npm7!)\n4. `npm start` (starts a development server with the app package)\n\nThe `packages/core/examples` directory contains some random view specification\nthat can be accessed through urls like\n`http://localhost:8080/?spec=examples/first.json`.\n\nThe `packages/core/private/` directory is in `.gitignore` and served by the\ndevelopment server: `http://localhost:8080/?spec=private/foo.json`. Use it for\nexperiments that should not go into version control.\n\nIf you want to use or develop the core library, launch a single-page app using:\n`npm -w @genome-spy/core run dev`\n\n### Contributing guidelines\n\nPlease see the [CONTRIBUTING.md](./CONTRIBUTING.md) file for more information.\n\n## Citing\n\nIf you use GenomeSpy in your research, please cite the following paper:  \nKari Lavikka, Jaana Oikkonen, Yilin Li, Taru Muranen, Giulia Micoli, Giovanni\nMarchi, Alexandra Lahtinen, Kaisa Huhtinen, Rainer Lehtonen, Sakari Hietanen,\nJohanna Hynninen, Anni Virtanen, Sampsa Hautaniemi, Deciphering cancer genomes\nwith GenomeSpy: a grammar-based visualization toolkit, _GigaScience_, Volume 13,\n2024, giae040, https://doi.org/10.1093/gigascience/giae040\n\n## About\n\nCopyright (c) 2019-2024 Kari Lavikka. See [LICENSE](LICENSE) for details.\n\nGenomeSpy is developed in [The Systems Biology of Drug Resistance in\nCancer](https://www.helsinki.fi/en/researchgroups/systems-biology-of-drug-resistance-in-cancer)\ngroup at the [University of Helsinki](https://www.helsinki.fi/en).\n\nThis project has received funding from the European Union's Horizon 2020\nresearch and innovation programme under grant agreement No. 965193\n([DECIDER](https://www.deciderproject.eu/)) and No. 847912\n([RESCUER](https://www.rescuer.uio.no/)), as well as from the Biomedicum\nHelsinki Foundation, the Sigrid Jusélius Foundation, and the Cancer Foundation\nFinland.\n\nContains some code copied and adapted from the following projects:\n\n- Vega and Vega-Lite ([LICENSE](https://github.com/vega/vega-lite/blob/master/LICENSE))\n- TWGL ([LICENSE](https://github.com/greggman/twgl.js/blob/master/LICENSE.md))\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fgenome-spy%2Fgenome-spy","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fgenome-spy%2Fgenome-spy","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fgenome-spy%2Fgenome-spy/lists"}