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Add bookmark widget docs to user guide (#2762)
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* Add bookmark widget docs to user guide

* Add note in pink about clicking the hamburger menu to open bookmark widget
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cmdcolin authored Feb 24, 2022
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21 changes: 21 additions & 0 deletions website/docs/user_guide.md
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Expand Up @@ -567,3 +567,24 @@ needs extra work on the part of the plugin developer to make them useful in the
GUI, some plugins require hand editing of configuration files).

<Figure caption="Screenshot showing the plugin store inside the app" src="/img/plugin_store.png" />

## Using the bookmark widget

JBrowse Web and JBrowse Desktop by default come with a "bookmark widget"

<Figure caption="Clicking and dragging on a region can be used to create a bookmark that can be returned to later on" src="/img/bookmark_widget.png"/>

The bookmark stores a list of single regions (chromosome, start, and end
coordinate), and clicking on the regions in the bookmark widget will launch a
linear genome view at that region.

You can also import a list of regions from a BED file

<Figure caption="Importing a list of regions from a BED file" src="/img/bookmark_widget_import.png"/>

Note also that you can add "notes" for your list of regions, allowing a simple
way to "annotate" your datasets

<Figure caption="Editing description" src="/img/bookmark_widget_edit_label.png"/>

Finally, you can export your list of regions to a BED file or TSV
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