Installation
Download the jbrowse.zip file and unzip into plugins directory.
Edit database details in services/settings.php
file.
Manual installation from JBrowse.org - optional
Following steps are important when you need to convert existing JBrowse into GenIE module.
Copy JBrowse into plugins folder
Copy index.php
into jbrowse folder
Create menu item called jbrowse
Change plugins plugins/jbrowse/main.css
and plugins/jbrowse/genome.css
Copy pugins/jbrowse/index.html
into plugins/jbrowse/tool.php
from jbrowse.zip
Copy plugins/jbrowse/src/dojo/dojo.css
from jbrowse.zip
Copy plugins/jbrowse/src/dijit/theme/tundra/tundra.css
from jbrowse.zip
Loading data into JBrowse
bin/prepare-refseqs.pl --fasta [genome fasta file]bin/flatfile-to-json.pl --gff [GFF3 file]] --trackLabel [Label name] --trackType CanvasFeaturesbin/generate-names.pl -v
Usage
Navigate to http://[your server name]/genie/jbrowse
For more information please go to JBrowse documentation