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JBrowse 2 Cancer Resources

A hub of tutorials, plugins, and information regarding cancer data and JBrowse 2

Check out the video tutorial series

Also checkout our written guides.

A screenshot of JBrowse

Download a sample configuration file to quick start using JBrowse 2 for cancer workflows

Includes hg19 and hg38 as default assemblies, the plugins highlighted below, and some sample data for exemplar purposes.

A screenshot of JBrowse

Download the most recent version of JBrowse 2

Available as a desktop application or web application.

JBrowse 2 plugins to connect cancer annotation datasets

This is a hub of plugins that provide an instance of JBrowse 2 access to cancer-associated annotation datasets.

GDC

Garrett Stevens, Colin Diesh, Rob Buels, Caroline Bridge

MIT

jbrowse-plugin-gdcGDC website
Description:

JBrowse 2 plugin for integrating resources from NCI's Genomic Data Commons (GDC).

ICGC

Caroline Bridge

Apache License 2.0

jbrowse-plugin-icgcICGC website
Description:

JBrowse 2 plugin for integrating resources from the International Cancer Genome Consortium (ICGC).

UCSC

Colin Diesh

MIT

jbrowse-plugin-usc-apiUCSC website
Description:

JBrowse 2 plugin for integrating resources from the UCSC API.

Biothings

Colin Diesh

MIT

jbrowse-plugin-biothings-apiBiothings website
Description:

JBrowse 2 plugin for adapting the API's from mygene.info and myvariant.info to get super rich gene annotations.

CIVIC

Colin Diesh

Apache License 2.0

jbrowse-plugin-civic-apiCIVIC website
Description:

JBrowse 2 plugin for fetching data from the CIVIC clinical interpretation of cancer variants.