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jbrowse-plugin-ideogram
Advanced tools
jbrowse-plugin-ideogram
Jbrowse 2 plugin for displaying an ideogram
Uses the great https://eweitz.github.io/ideogram/ library for rendering
git clone https://github.com/cmdcolin/jbrowse-plugin-ideogram
cd jbrowse-plugin-ideogram
yarn
yarn start
Then open JBrowse Web to (assuming it is running on port 3000):
http://localhost:3000/?config=http://localhost:9080/config.json
Add to the "plugins" of your JBrowse Web config:
{
"plugins": [
{
"name": "Ideogram",
"url": "https://unpkg.com/jbrowse-plugin-ideogram/dist/jbrowse-plugin-ideogram.umd.production.min.js"
}
]
}
To annotate features on the ideogram as in the screenshot above, data must be uploaded via the setup screen's open file interface.
name
"[{"name": "MYLINK", "link": "https://my-link.com/"}]"
name
note1
note2
name genomeLocation tier externalLinks
note1 1:39895426-39902013 1 [{"name":"MYLINK","link":"https://my-link.com/note1"}]
note2 1:157573749-157598080 2 [{"name":"MYLINK", "link":"https://my-link.com/note2"}]
Any additional data will be parsed out and displayed in the widget that can be brought out by clicking an annotation on the ideogram.
If these formatting rules are not obeyed the annotations will not be displayed.
FAQs
> Jbrowse 2 plugin for displaying an ideogram
We found that jbrowse-plugin-ideogram demonstrated a not healthy version release cadence and project activity because the last version was released a year ago. It has 2 open source maintainers collaborating on the project.
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