Plugin Store
This store contains the current list of white-listed JBrowse 2 plugins. Plugins can add functionality that doesn't exist in the core application, such as a new data adapter or a custom track type.
The configuration specified for each plugin can be added to the
plugins array as a top-level entry. Naming the store
entry rather than a url is what lets JBrowse pick a build published
for the version doing the reading, and check its integrity hash:
{
"plugins": [
{
"storePlugin": "MsaView"
}
]
}Plugins can also be added directly inside the app via the File menu.
We welcome developers who want to create a new JBrowse 2 plugin. The primary resource for getting started is the plugin template . If you build a plugin you'd like featured in this store, follow the instructions found here .
MsaView
GitHubmultiple sequence alignment browser plugin for JBrowse 2
{
"storePlugin": "MsaView"
}
Biothings
GitHubAdapts to APIs like mygene.info to get super rich gene annotations
{
"storePlugin": "Biothings"
}
Ideogram
GitHubJBrowse 2 plugin for rendering ideograms
{
"storePlugin": "Ideogram"
}
CIVIC
GitHubJBrowse 2 plugin for fetching data from the CIVIC clinical interpretation of cancer variants
{
"storePlugin": "CIVIC"
}
Reactome
GitHubJBrowse 2 plugin to integrate resources from Reactome
{
"storePlugin": "Reactome"
}
TrackHubRegistry
GitHubJBrowse 2 plugin that adds ability to connect to hubs from the trackhub registry
{
"storePlugin": "TrackHubRegistry"
}
RefGet
GitHubJBrowse 2 plugin that adds ability to retrieve sequences from refget API compliant servers
{
"storePlugin": "RefGet"
}
Linkout
GitHubJBrowse 2 plugin that links out to feature page based on dbxref
{
"storePlugin": "Linkout"
}
Protein3d
GitHubView 3-D protein structures in JBrowse 2
{
"storePlugin": "Protein3d"
}
TView
GitHubLoads BAM/CRAM read pileups into react-msaview for a `samtools tview` style interface inside JBrowse 2
{
"storePlugin": "TView"
}
GraphGenomeView
GitHubGraph genome (pangenome) view: rGFA reference-anchored layouts, the Bandage force-directed engine, and haplotype lanes read from a gbz-base database
{
"storePlugin": "GraphGenomeView"
}
TandemRepeat
GitHubA tandem repeat's alleles, one bar per haplotype with each copy colored by its repeat unit, from VCF 4.5 <CNV:TR> records
{
"storePlugin": "TandemRepeat"
}