Config guide

How to write the assemblies, tracks and settings a JBrowse session is built from. They are the same objects in a served config.json, in a jbrowse CLI command, and pasted into a running JBrowse Web or Desktop, so a guide here applies wherever you run it. For copy-paste recipes, see the Cookbook.

Core configuration#

• config.json format
• Assemblies
• Tracks
• Authentication
• Config slot types
• Config guide: Connections
• FromConfig adapters
• Plugins
• Supported file types
• Text searching

Track types#

• Config guide: Alignments track
• GWAS track
• Config guide: Hi-C track
• Config guide: MAF track
• Config guide: Multi-quantitative track
• Config guide: Quantitative track
• Synteny track
• Config guide: Variant track

Callbacks#

• Customizing feature colors
• Customizing feature details
• Using jexl callbacks

Appearance#

• Coloring/theming
• Default session
• Hierarchical track selector

Deployment#

• Avoiding stale config
• Deploying JBrowse Web
• Disabling analytics
• Serving data files