VirusBank Phylotree project

Update

Introduction

This repository contains the code and content for the PhyloViz part of the [VirusBank platform](https://virusbankplatform.be. The idea is that as much as possible of the site is generated, either during pre-rendering or page load. Next to that, all functionality that is generic is handled as such and can be found under _js/.

We use Quarto for rendering the site from source code and content to what you see on the internet. Quarto files have the .qmd extension and typically contain a YAML header (the part between the --- lines). By using Quarto, it’s possible for instance to include files from _js/ into another file using a `` statement.

This can be illustrated using three situations that the site/app is created for:

A new tool is available for a virus

Adding a new tool for a virus should be easy, especially if we keep in mind that developing tools is the core business of the VirusBank.

Adding a virus to an existing family

If tools are developed or made available for a virus that was not yet listed, we should be able to quickly add this information and let this be reflected where relevant.

Updating information about a virus

Next to structure information about a virus, we also store and show semi-structured data: transmission and symptoms, for instance. This information should be easy to add or update.

These scenarios (and others) have been taken into account for the design of the site/app.

Documentation

Documentation has been integrated in the app itself and is stored onder docs/.