I am working on the JBROWSE
Can I generate the gene report page (as I can do it on Gbrowse 1 + )?
Second issue is with the Tiling array data, Is there is any way to represent tiling array data or in other words signal strength.
If there is, can I have the JSON file for that.
On 5/28/2010 1:51 PM, Swapnil Nagar wrote:
> Can I generate the gene report page (as I can do it on Gbrowse 1 + )?
Currently, all JBrowse can do is either 1) the little popup you get when
you click on a feature, or 2) link to a page provided by something else.
So if you have a GBrowse instance going, then you can use JBrowse to
link to the GBrowse gene page, so that the GBrowse gene page opens when
you click on a gene. You can specify that link using the "urlTemplate"
setting in the config file (with bin/biodb-to-json.pl), or using the
--urltemplate parameter to bin/flatfile-to-json.pl.
JBrowse by itself doesn't currently generate anything like the GBrowse
gene pages, though.
> Second issue is with the Tiling array data, Is there is any way to represent tiling array data or in other words signal strength.
If you can get the data into the wiggle format:
or the bedGraph format:
then you can display the data in JBrowse, by running the
bin/wig-to-json.pl program on your wiggle/bedGraph file.
Hope this helps,