search

GMOD / jbrowse

JBrowse 1, a full-featured genome browser built with JavaScript and HTML5. For JBrowse 2, see https://github.com/GMOD/jbrowse-components.
http://jbrowse.org
Other
462 stars 199 forks source link

semantic zooming #327

Open keiranmraine opened 11 years ago

keiranmraine commented 11 years ago

Hi,

I'm working to get JBrowse into a useable state for people used to working with GBrowse and one thing that would be nice is a more natural progression of data in BAM tracks.

Unless I've failed to find relevant documentation it doesn't appear to be possible to have behaviour similar to GBrowse's semantic zoom. What I'm after is the ability to define a single BAM track which has the composite behaviour of:

Alignment2 - BAM file
SNPCoverage - BAM file
XYPlot - BigWig file

Each layer being given a zoom level to to automatically switch between the modes.

The ability to force the individual modes via the tracks 'Display mode' would be a bonus (but not essential).

Has anyone given this any thought?

Keiran Raine Principal Bioinformatician Cancer Genome Project Wellcome Trust Sanger Institute

rbuels commented 11 years ago

Yes, semantic zooming is on the roadmap for the 2.x series. It looks like there is not a ticket for it, though, so I'll make this one it.

selewis commented 11 years ago

There is one I believe under the Apollo ticket list (or ought to be). Remember this being requested for the paper?

On Aug 28, 2013, at 9:11 AM, Robert Buels notifications@github.com wrote:

Yes, semantic zooming is on the roadmap for the 2.x series. It looks like there is not a ticket for it, though, so I'll make this one it. — Reply to this email directly or view it on GitHub.