Re: [Gmod-ajax] JBrowse 1.4.0 released - now with faceted track selection!

[Robert B. <rb...@gm...>]

Not right now, but I'll add that in the next JBrowse release, which will 
be within the next few weeks.  You can see the progress of this issue at 
https://github.com/GMOD/jbrowse/issues/138.

Robert Buels
Lead Developer
JBrowse - http://jbrowse.org

On 09/06/2012 07:29 PM, ste...@gm... wrote:
> Oh no!
> Is there no possibility to enable the chromosome dropdown field again as in the hg19 example?
>
>
> <quote author='Robert Buels-2'>
> Hi all,
>
> JBrowse 1.4.0 has been released!  There are two headline features in
> this release: a new, extremely powerful faceted track selector that
> makes it easy for users to search through hundreds or thousands of
> tracks based on their metadata, and much better support for large
> numbers of reference sequences, enabled by retiring the old reference
> sequence dropdown selector in favor of adding a new find-as-you-type
> feature to the location box.
>
> A demonstration of the faceted track selector can be seen at
> http://jbrowse.org/code/JBrowse-1.4.0-full/index.html?data=sample_data/json/modencode.
>    This contains a snapshot of the modENCODE track metadata taken from
> http://data.modencode.org.  Note that the track data and reference
> sequences in this track selection demo are not real: the reference
> sequences and wiggle data are all just copies of the volvox wiggle test
> track from the JBrowse test suite.
>
> As is becoming the norm, this release comes in two flavors: the
> “minimal” release (JBrowse-1.4.0-min.zip - 2.6M) that includes only the
> software and documentation necessary to format your own data and run the
> browser, and the “full” release (JBrowse-1.4.0-full.zip - 5.5M) that
> includes the developers’ test suite, more sample data files, and
> developer documentation.
>
> The releases can be downloaded from http://jbrowse.org/install/.
>
> There have been lots of improvements over the 1.3 series:
>
> * Added a full-featured faceted track selector for users that have
> many (hundreds or thousands) of tracks. This can be turned on by
> setting the trackSelectorType config variable to “Faceted”. See
> the JBrowse wiki for more documentation on how to use faceted track
> selection. (issue #95)
>
> * Removed the dropdown selector for reference sequences in favor of
> making the location box auto-complete reference sequence and
> feature names. This makes JBrowse much more scalable to large
> numbers of reference sequences. (fixes issues #3, #60, and #101)
>
> * Added a vertical-scrolling marker on the right side of the track
> pane, making it much easier to discern the vertical position of the
> track display. (issue #93).
> biodb-to-json.pl and flatfile-to-json.pl now load all available
> feature data: all attributes of features are now encoded in the
> JSON and are available for use by feature callbacks. (issue #72)
> Feature labels now do not scroll off screen if any part of the
> feature is still visible (fixes issue #62).
>
> * Added jbrowse_conf.json, a default JSON-format configuration file,
> to the JBrowse root directory. Makes it easier to get started
> with more advanced JBrowse configuration.
>
> * JBrowse instances now report anonymous usage statistics to the JBrowse
> developers. This data is very important to the JBrowse project,
> since it is used to make the case to grant agencies for continuing
> to fund JBrowse development. No research data is transmitted, the
> data collected is limited to standard Google Analytics, along with
> a count of how many tracks the JBrowse instance has, how many
> reference sequences are present, their average length, and what
> types of tracks (wiggle, feature, etc) are present. Users can
> disable usage statistics by setting “suppressUsageStatistics: true”
> in the JBrowse configuration.
>
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> </quote>
> Quoted from:
> http://gmod.827538.n3.nabble.com/Gmod-ajax-JBrowse-1-4-0-released-now-with-faceted-track-selection-tp4022535p4022535.html
>