On 06/20/2013 11:04 AM, Jayaraman, Pushkala wrote:
> So how do I display my BAM data? I know I need to use Alignments2 tracks
> but when I create a separate.conf file how does that configuration pull
> in the BAM files?
> Is there another script I need to run?
As Ray said, no scripts, you just add a little snippet of JSON to the
JBrowse configuration (either jbrowse_conf.json or the trackList.json in
your data directory) that points it at the URL of the BAM file. It
reads it directly.
There's an example configuration on the wiki a little bit down from that