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Pangenome Browser
Before this Hackathon, the Graph Genome Browser Consortium was already working on implementing Pangenome Schematics: the first design capable of scaling to thousands of individuals in a single variation graph (a.k.a. Graph Genome). This hackathon will take the browser out of alpha stage and make it into a service useful for COVID-19 researchers.
Vision: Our goal is to provide a public server hosting Schematize browser loaded with an up to date COVID-19 pangenome with annotations on all our knowledge of variants and their effects aggregated across the globe. This global view of our current knowledge of the COVID-19 pangenome will be help enable faster access to data shared around the world. Virus sequence variation is relevant to vaccine targeting, virus tests, and triage.
- Josiah Seaman
- Simon Heumos
- Joerg Hagmann
- Ben Busby
- Pierre Marijon
Documentation will be fleshed out over the next few days. A good place to start is the original Graph Genome Browser Specification document. There is also a technical paper with results in progress, but I need to get permission from all the other authors before sharing it.
- Issues can be found on our GitHub repositories which has Projects for tracking cross-repo features.
- Most issues are on the Schematize browser
- Deploy and local installation: Toshiyuki has created a pipeline which checkout the latest versions of our repo. This is the best option to start with. User friendly installation is one of our development goals.