]]><![CDATA[JBrowse 1.16.5 maintenance release]]>https://jbrowse.org/blog/2019/06/12/jbrowse-1-16-5.html2019-06-12T06:00:00ZI am pleased to announce the release of JBrowse 1.16.5. This includes some name regularization fixes (e.g. when you have chr1 and 1 it tries to map to the same thing), some bigwig fixes, a small speedup for BAM data, and more. Please read the release
]]><![CDATA[JBrowse 1.16.4 maintenance release]]>https://jbrowse.org/blog/2019/04/10/jbrowse-1-16-4.html2019-04-10T06:00:00ZI'm pleased to announce the release of JBrowse 1.16.4. This has a couple of specialized fixes.
One fix provides a better error message if you give improper inputs for tabix or BAI files that actually require CSI indexes. This came up often for peopl
]]><![CDATA[JBrowse 1.16.3 maintenance release]]>https://jbrowse.org/blog/2019/02/20/jbrowse-1-16-3.html2019-02-20T06:00:00ZHello all, this is a small maintenance release that most importantly addresses compatibility that was causing setup.sh to fail on many installations by fixing a missing BioPerl package that was removed from their core distribution. If you are stuck w
]]><![CDATA[JBrowse 1.16.2 maintenance release]]>https://jbrowse.org/blog/2019/01/31/jbrowse-1-16-2.html2019-01-31T06:00:00ZI'm happy to announce the release of 1.16.2, it is a smaller maintenance release. It contains several fixes including for CSI in BAM files,
and several other small fixes. Thanks to everyone for communicating requests and bug reports
[JBrowse-1.1
]]><![CDATA[JBrowse 1.16.1 maintenance release]]>https://jbrowse.org/blog/2018/12/27/jbrowse-1-16-1.html2018-12-27T06:00:00ZI'm pleased to announce the release of JBrowse 1.16.1! This release offers a variety of small bugfixes for cross-origin resource fetching, BAM files, and JBrowse desktop.
It also contains a fix that helps very large track lists to have a faster init
]]><![CDATA[JBrowse 1.16.0 maintenance release]]>https://jbrowse.org/blog/2018/12/13/jbrowse-1-16-0.html2018-12-13T06:00:00ZI am very pleased to announce the release of JBrowse version 1.16.0!
A major new feature of this release is the introduction of paired read visualization options!
And rather than delivering just one type of paired read visualization, there are many
]]><![CDATA[JBrowse 1.15.4 maintenance release]]>https://jbrowse.org/blog/2018/10/05/jbrowse-1-15-4.html2018-10-05T06:00:00ZJBrowse 1.15.4 has been released! This release allows you to use bgzip indexed FASTA, adds a new categoryOrder config for sorting the Hierarchical track selector, and more!
Thanks to everyone for their feature requests and bug reports, and enjoy!
]]><![CDATA[JBrowse 1.15.3 maintenance release]]>https://jbrowse.org/blog/2018/08/29/jbrowse-1-15-3.html2018-08-29T06:00:00ZJBrowse 1.15.3 has been released! This contains an bugfix introduced in 1.15.0 where typing a reference sequence name in the search bar did not navigate to it properly.
It also contains a cool feature where "ultra minimal configs" can be specified by
]]><![CDATA[JBrowse 1.15.2 maintenance release]]>https://jbrowse.org/blog/2018/08/16/jbrowse-1.15.2-maintenance-release-index.html2018-08-16T06:00:00ZJBrowse 1.15.2 has been released! This contains a couple nice features including
estimating feature density directly from the index file of BAM, VCF, and other
tabix formats. We also updated the website with a new blogging and documentation
platform!
]]><![CDATA[JBrowse 1.15.1 maintenance release]]>https://jbrowse.org/blog/2018/08/01/jbrowse-1-15-1-index.html2018-08-01T06:00:00ZJBrowse 1.15.1 has been released!
]]><![CDATA[JBrowse 1.15.0 release - CRAM support, CSI indexes, and on the desktop!]]>https://jbrowse.org/blog/2018/07/19/jbrowse-1-15-0-release-index.html2018-07-19T06:00:00ZJBrowse 1.15.0 has been released! This is a really big one.
At long last, JBrowse can open and view CRAM v2 and v3 files just like BAM. In fact, viewing CRAM files can sometimes be even faster than viewing BAM files, because there is less data to mo
]]><![CDATA[JBrowse 1.14.2 maintenance release]]>https://jbrowse.org/blog/2018/06/04/jbrowse-1-14-2-index.html2018-06-04T06:00:00ZJBrowse 1.14.2 has been released!
]]><![CDATA[JBrowse 1.14.1 maintenance release]]>https://jbrowse.org/blog/2018/05/02/jbrowse-1-14-1-maintenance-release-index.html2018-05-02T06:00:00ZJBrowse 1.14.1 has been released!
]]><![CDATA[JBrowse 1.14.0 release - iframe-less embedding, BigBed support]]>https://jbrowse.org/blog/2018/04/18/jbrowse-1-14-0-release-index.html2018-04-18T06:00:00ZJBrowse 1.14.0 has been released!
This release includes two major improvements, the first being that it's no longer strictly necessary to run JBrowse inside an <iframe> when embedding it in another site or webpage. Big thanks to Lacey Sanderson fo
]]><![CDATA[JBrowse 1.13.1 maintenance release]]>https://jbrowse.org/blog/2018/03/28/jbrowse-1-13-1-maintenance-release-index.html2018-03-28T06:00:00ZJBrowse 1.13.1 has been released!
]]><![CDATA[JBrowse 1.13.0 release - now with webpack!]]>https://jbrowse.org/blog/2018/03/15/jbrowse-1-13-0-release-index.html2018-03-15T06:00:00ZI'm pleased to announce that JBrowse 1.13.0 has been released!
There are actually not a huge number of new features in this release, but there has been a significant change in the way JBrowse is built behind the scenes, and the introduction of a sli
]]><![CDATA[JBrowse 1.12.5 maintenance release]]>https://jbrowse.org/blog/2018/02/28/jbrowse-1-12-5-maintenance-release-index.html2018-02-28T06:00:00ZJBrowse 1.12.5 has been released!
]]><![CDATA[JBrowse 1.12.4 maintenance release]]>https://jbrowse.org/blog/2018/02/14/jbrowse-1-12-4-maintenance-release-index.html2018-02-14T06:00:00ZJBrowse 1.12.4 has been released, with a great many improvements and bugfixes! Apologies for the long delay since the last release.
One highlight of this release is that we have fixed a severe incompatibility that prevented many of the JBrowse forma
]]><![CDATA[JBrowse-1.12.3: Maintenance Release]]>https://jbrowse.org/blog/2017/05/02/jbrowse-1-12-3-index.html2017-05-02T06:00:00Z**We are happy to announce JBrowse 1.12.3 release! **
This release includes a lot of improvements and bugfixes and we thank the community for the support. Some great new features include parsers for new file formats including 2bit format, which can
]]><![CDATA[GSoC Students Do Cool JBrowse Projects]]>https://jbrowse.org/blog/2016/06/03/gsoc-students-do-cool-jbrowse-projects-index.html2016-06-03T06:00:00ZI'm pleased to introduce two Google Summer of Code students who are working actively on Jbrowse projects:
Pubudu Dodangodais working on a social commentin
]]>
<![CDATA[JBrowse-1.12.1: Maintenance Release]]>https://jbrowse.org/blog/2016/03/01/jbrowse-1-12-1-index.html2016-03-01T06:00:00ZWe are happy to announce JBrowse 1.12.1 release! This is a maintenance release.
]]><![CDATA[State of the Browser, 2016]]>https://jbrowse.org/blog/2016/02/25/state-of-the-browser-2016-index.html2016-02-25T06:00:00ZIt's been a while since we posted on here*, and while the JBrowse-o-sphere has not been silent (there's been plenty of chatter on the gmod-ajax mailing list and the GitHub [issues
]]><![CDATA[JBrowse-1.12.0: Open new genome from FASTA, in-line refseqs, NeatFeatures, Desktop]]>https://jbrowse.org/blog/2015/12/17/jbrowse-1-12-0-index.html2015-12-17T06:00:00ZWe are happy to announce JBrowse 1.12.0 release! This new release includes some exciting new features including the ability to load new genomes from FASTA and indexed FASTA formats; in-line refseqs, and server-free desktop applications for Windows an
]]><![CDATA[JBrowse-1.11.6 maintenance release]]>https://jbrowse.org/blog/2015/02/12/jbrowse-1-11-6-index.html2015-02-12T06:00:00ZI'm pleased to announce JBrowse 1.11.6 is now available! Everybody's feedback, bug reports, pull requests, and feature requests have been invaluable for making this happen. This release includes new UI options for easily setting "Log scale" on wiggle
]]><![CDATA[JBrowse-1.11.5 maintenance release]]>https://jbrowse.org/blog/2014/09/04/jbrowse-1-11-5-index.html2014-09-04T06:00:00ZA new JBrowse release has arrived! JBrowse 1.11.5 incorporates many valuable contributions and feedback from the community which has been overwhelmingly positive. Some notable bugs have been fixed, including a long-standing VCF file parsing bug, a sc
]]><![CDATA[JBrowse-1.11.4 maintenance release]]>https://jbrowse.org/blog/2014/05/14/jbrowse-1-11-4-maintenance-release-index.html2014-05-14T06:00:00ZI am happy to announce the release of JBrowse 1.11.4. This is the first release after Rob's leave, and it represents the great community effort to keep things going. There are some exciting new developments in this version, including high-resolution
]]><![CDATA[JBrowse 1.11.3 maintenance release]]>https://jbrowse.org/blog/2014/03/07/jbrowse-1-11-3-index.html2014-03-07T06:00:00ZJBrowse 1.11.3 has been released, with quite a few improvements and bugfixes, including a new coloring scheme for BAM alignment tracks (Alignments2 tracks), a fix for some annoying bugs with the feature arrowheads, and some nice new configuration var
]]><![CDATA[Tutorial: exploring structural variation using JBrowse, from the tomato 150+ re-seq project]]>https://jbrowse.org/blog/2014/02/12/tutorial-exploring-structural-variation-index.html2014-02-12T06:00:00ZWe recently used JBrowse in the 150 Tomato Genome ReSequencing project, and it worked great!
The aim of the 150 Tomato Genome ReSequencing project (http://www.tomatogenome.net) is to reveal and explore the genetic vari
]]><![CDATA[JBrowse 1.11.2 maintenance release]]>https://jbrowse.org/blog/2014/02/10/jbrowse-1-11-2-index.html2014-02-10T06:00:00ZJBrowse 1.11.2 has been released, with some new controls to adjust the size of quantitative tracks (thanks to Evan Briones at University of Arizona!), added support for the new text-based tracks.conf files to generate-names.pl, and quite a few ot
]]><![CDATA[JBrowse 1.11.1 maintenance release]]>https://jbrowse.org/blog/2014/01/07/jbrowse-1-11-1-index.html2014-01-07T06:00:00ZJBrowse 1.11.1 has been released, with a number of bug fixes and some nice improvements to Alignments2 tracks. Most of the Alignments2 improvements were thought up by Keiran Raine at Sanger, thanks Keiran! Thanks also to Cris Lawrence and Richard H
]]><![CDATA[JBrowse 1.11.0: hierarchical track selector, easier configuration, summary mode]]>https://jbrowse.org/blog/2013/12/19/jbrowse-1-11-0-index.html2013-12-19T06:00:00ZJBrowse 1.11.0 is out today, with some major new features, and, as always, quite a lot of smaller bugfixes and improvements.
]]><![CDATA[JBrowse 1.10.12 maintenance release (please upgrade!)]]>https://jbrowse.org/blog/2013/12/10/jbrowse-1-10-12-index.html2013-12-10T06:00:00ZJBrowse 1.10.12 has been released, and we are asking all users of JBrowse 1.10.7 1.10.10 and higher to please upgrade to this release as soon as possible.
The story behind this is a bit embarassing: I discovered today that JBrowse rel
]]><![CDATA[JBrowse 1.10.11 maintenance release]]>https://jbrowse.org/blog/2013/12/03/jbrowse-1-10-11-index.html2013-12-03T06:00:00ZJBrowse 1.10.11 has been released, with many bug fixes and better support for spliced alignments in SNPCoverage tracks.
(Download disabled. Please download the[]]>
<![CDATA[JBrowse 1.10.10 maintenance release]]>https://jbrowse.org/blog/2013/11/21/jbrowse-1-10-10-index.html2013-11-21T06:00:00ZJBrowse 1.10.10 has been released, with new compression support in generate-names.pl, configurable inter-track spacing, and quite a few bug fixes.
(Download di]]>
<![CDATA[JBrowse 1.10.9 maintenance release]]>https://jbrowse.org/blog/2013/11/08/jbrowse-1-10-9-index.html2013-11-08T06:00:00ZJBrowse 1.10.9 has been released, with new incremental-updating support in generate-names.pl, along with some other bug fixes and small improvements.
]]><![CDATA[JBrowse 1.10.8 maintenance release]]>https://jbrowse.org/blog/2013/10/25/jbrowse-1-10-8-index.html2013-10-25T06:00:00ZJBrowse 1.10.8 has been released, with an important bugfix for generate-names.pl, better REST data store feature caching, and more.
]]><![CDATA[JBrowse 1.10.7 maintenance release]]>https://jbrowse.org/blog/2013/10/15/jbrowse-1-10-7-index.html2013-10-15T06:00:00ZJBrowse 1.10.7 has been released, with some important bug fixes and added support for displaying feature density histograms from REST stores.
]]><![CDATA[JBrowse 1.10.6 maintenance release]]>https://jbrowse.org/blog/2013/10/07/jbrowse-1-10-6-index.html2013-10-07T06:00:00ZJBrowse 1.10.6 has been released, with some important bug fixes.
]]><![CDATA[JBrowse 1.10.5 maintenance release]]>https://jbrowse.org/blog/2013/10/03/jbrowse-1-10-5-index.html2013-10-03T06:00:00ZJBrowse 1.10.5 has been released, with some important bug fixes and more performance improvements for data formatting scripts.
]]><![CDATA[JBrowse 1.10.4 maintenance release]]>https://jbrowse.org/blog/2013/09/23/jbrowse-1-10-4-index.html2013-09-23T06:00:00ZJBrowse 1.10.4 has been released, with a new simple sequence-search track tool, large performance improvements for generate-names.pl, and some new filtering options for VCF-based variant tracks.
Files for download:
[JBrowse-1.10.4.zip](/wordp
]]><![CDATA[JBrowse 1.10.3 maintenance release]]>https://jbrowse.org/blog/2013/09/04/jbrowse-1-10-3-index.html2013-09-04T06:00:00ZJBrowse 1.10.3 has been released, with a lot of small enhancements and important bugfixes.
]]><![CDATA[JBrowse 1.10.2 maintenance release]]>https://jbrowse.org/blog/2013/08/15/jbrowse-1-10-2-index.html2013-08-15T06:00:00ZJBrowse 1.10.2 has been released, with fixes for some minor issues, and some minor improvements to the CanvasFeatures track.
]]><![CDATA[JBrowse 1.10.1 maintenance release]]>https://jbrowse.org/blog/2013/08/06/jbrowse-1-10-1-maintenance-release-index.html2013-08-06T06:00:00ZJBrowse 1.10.1 has been released, with fixes for some minor issues and one major issue.
]]><![CDATA[JBrowse 1.10.0: Combination tracks, better feature tracks, more glyphs, SPARQL support, and track pinning!]]>https://jbrowse.org/blog/2013/07/30/jbrowse-1-10-0-index.html2013-07-30T06:00:00ZAfter a long, hard development push, JBrowse 1.10.0 is out today! There are several major improvements in this release, and a huge number of smaller improvements and bugfixes.
Download links
[JBrowse-1.10.0.zip](/wordpress/wp-content/p
]]><![CDATA[JBrowse 1.9.8 maintenance release]]>https://jbrowse.org/blog/2013/07/05/jbrowse-1-9-8-index.html2013-07-05T06:00:00ZJBrowse 1.9.8 has been released, with fixes for some minor issues, a performance improvement when many HTML-based tracks are open, and a new yScalePosition configuration option for all tracks can can be set to "left", "right", or "center" to change
]]><![CDATA[About JBrowse version numbers]]>https://jbrowse.org/blog/2013/07/02/about-jbrowse-version-numbers-index.html2013-07-02T06:00:00ZJust so everybody's on the same page, I thought I should point out that from 1.2.0 onward, JBrowse version numbers follow a predictable scheme that encodes a bit of information about what is contained in a release.
JBrowse version numbers look like
]]><![CDATA[JBrowse 1.9.7 maintenance release]]>https://jbrowse.org/blog/2013/06/25/jbrowse-1-9-7-maintenance-release-index.html2013-06-25T06:00:00ZJBrowse 1.9.7 has been released, with an important fix for a race condition that intermittently causes some NCList-based tracks to show the wrong genomic region when the browser is first started, and a fix for a bug in how JBrowse plugin paths are ca
]]><![CDATA[JBrowse 1.9.6 maintenance release]]>https://jbrowse.org/blog/2013/06/18/jbrowse-1-9-6-maintenance-release-index.html2013-06-18T06:00:00ZJBrowse 1.9.6 has been released, with a few more bug fixes and a new --workdir option for generate-names.pl.
]]><![CDATA[JBrowse 1.9.5 maintenance release]]>https://jbrowse.org/blog/2013/06/12/jbrowse-1-9-5-index.html2013-06-12T06:00:00ZJBrowse 1.9.5 has been released, with some small new features, and fixes for many small issues.
]]><![CDATA[JBrowse 1.9.4 maintenance release]]>https://jbrowse.org/blog/2013/05/22/jbrowse-1-9-4-index.html2013-05-22T06:00:00ZJBrowse 1.9.4 has been released, with fixes for a number of smaller issues present in the 1.9.3 release.
]]><![CDATA[JBrowse 1.9.3 maintenance release]]>https://jbrowse.org/blog/2013/05/09/jbrowse-1-9-3-index.html2013-05-09T06:00:00ZJBrowse 1.9.3 has been released, with fixes for a number of smaller issues present in the 1.9.2 release.
]]><![CDATA[JBrowse 1.9.2 maintenance release]]>https://jbrowse.org/blog/2013/05/02/jbrowse-1-9-2-index.html2013-05-02T06:00:00ZJBrowse 1.9.2 has been released, with fixes for a number of smaller issues present in the 1.9.1 release.
]]><![CDATA[JBrowse 1.9.1 maintenance release]]>https://jbrowse.org/blog/2013/04/25/jbrowse-1-9-1-index.html2013-04-25T06:00:00ZJBrowse 1.9.1 has been released, with performance improvements in both BAM and VCF tracks, and lots of smaller fixes and improvements.
]]><![CDATA[JBrowse 1.9.0: VCF support, dataset switching, wiggle track dynamic scaling, REST backend]]>https://jbrowse.org/blog/2013/04/16/jbrowse-1-9-0-index.html2013-04-16T06:00:00ZJBrowse 1.9.0 is out today, with some great new features, and lots of smaller improvements and bug fixes.
]]><![CDATA[JBrowse 1.8.1 bugfix release]]>https://jbrowse.org/blog/2013/02/12/jbrowse-1-8-1-bugfix-release-index.html2013-02-12T06:00:00ZJBrowse 1.8.1 has been released, with several small fixes and additional features, mostly related to displaying features on peptide sequences.
]]><![CDATA[JBrowse 1.8.0: opens local files, new BAM track types, new plugin system]]>https://jbrowse.org/blog/2013/01/31/jbrowse-1-8-0-index.html2013-01-31T06:00:00ZJBrowse 1.8.0 is finally here, with some great new features, and lots of smaller improvements.
]]><![CDATA[JBrowse 1.7.6 bugfix release]]>https://jbrowse.org/blog/2013/01/10/jbrowse-1-7-6-bugfix-release-index.html2013-01-10T06:00:00ZJBrowse 1.7.6 has been released, containing a fix for yet another bug that prevented display of certain kinds of BAM files. The rate of bug reports for BAM support is tailing off, and it's starting to look pretty solid. Thanks to everyone who has h
]]><![CDATA[JBrowse 1.7.5 bugfix release]]>https://jbrowse.org/blog/2012/12/12/jbrowse-1-7-5-bugfix-release-index.html2012-12-12T06:00:00ZJBrowse 1.7.5 has been released, containing fixes for some more issues found in the 1.7.4 release and earlier releases in the 1.7.x series.
Files for download:
[
]]><![CDATA[JBrowse 1.7.4 bugfix release]]>https://jbrowse.org/blog/2012/12/06/jbrowse-1-7-4-bugfix-release-index.html2012-12-06T06:00:00ZJBrowse 1.7.4 has been released, containing fixes for some more issues found in the 1.7.3 release and earlier. In particular, several bad bugs have been fixed in supp
]]><![CDATA[JBrowse 1.7.3 bugfix release]]>https://jbrowse.org/blog/2012/11/28/jbrowse-1-7-3-bugfix-release-index.html2012-11-28T06:00:00ZJBrowse 1.7.3 has been released, containing fixes for some more issues found in the 1.7.2 release and earlier. Remote BAM access is rather difficult to get right, tha
]]><![CDATA[JBrowse 1.7.2 bugfix release]]>https://jbrowse.org/blog/2012/11/09/jbrowse-1-7-2-bugfix-release-index.html2012-11-09T06:00:00ZJBrowse 1.7.2 has been released, containing a fix for some further BAM issues found in the 1.7.1 release. Thanks so much to everyone who has worked with me to isolate
]]><![CDATA[JBrowse 1.7.1 bugfix release]]>https://jbrowse.org/blog/2012/11/07/jbrowse-1-7-1-bugfix-release-index.html2012-11-07T06:00:00ZJBrowse 1.7.1 has been released, containing fixes for some issues in the 1.7.0 release.
Files for download:
[JBrowse-1.7.1.zip](/wordp
]]><![CDATA[JBrowse 1.7.0, now with data export, direct BAM display, and much more]]>https://jbrowse.org/blog/2012/11/05/jbrowse-1-7-0-index.html2012-11-05T06:00:00ZI am pleased to announce the release of JBrowse 1.7.0, which includes a great many enhancements both large and small. Very exciting!
]]><![CDATA[JBrowse 1.6.5 bugfix release]]>https://jbrowse.org/blog/2012/10/26/jbrowse-1-6-5-bugfix-release-index.html2012-10-26T06:00:00ZI'm pleased to announce the release of JBrowse 1.6.5, containing some small new features, plus fixes for some issues in the [1.6.4 release](http://jbrowse.org/jbrowse-1-6-4-bugfix-release/ "JBrowse 1.6.4 bugfix is also coming along very soon, with a
]]><![CDATA[JBrowse 1.6.4 bugfix release]]>https://jbrowse.org/blog/2012/10/16/jbrowse-1-6-4-bugfix-release-index.html2012-10-16T06:00:00ZJBrowse 1.6.4 has been released, containing fixes for some small issues in the 1.6.3 release.
Files for download:
[JBrowse-1.6.4-min.zip](/wordpress/wp-content/p
]]><![CDATA[JBrowse 1.6.3 bugfix release]]>https://jbrowse.org/blog/2012/09/28/jbrowse-1-6-3-bugfix-release-index.html2012-09-28T06:00:00ZJBrowse 1.6.3 has been released, containing fixes for some small issues in the 1.6.2 release.
Files for download:
[JBrowse-1.6.3-min.zip](/wordpress/wp-content/p
]]><![CDATA[JBrowse 1.6.2 bugfix release]]>https://jbrowse.org/blog/2012/09/10/jbrowse-1-6-2-bugfix-release-index.html2012-09-10T06:00:00ZJBrowse 1.6.2 has been released, containing fixes for some small issues in the 1.6.1 release.
Files for download:
[JBrowse-1.6.2-min.zip](/wordpress/wp-content/p
]]><![CDATA[@rbuels and JBrowse at the Semantic Web BioHackathon 2012]]>https://jbrowse.org/blog/2012/09/07/rbuels-and-jbrowse-at-the-semantic-web-biohackathon-2012-index.html2012-09-07T06:00:00ZI had the great honor of being invited to the [BioHackathon 2012](BioHackathon 2012), held this past week in Toyama, Japan and funded by Japan's National Bioscience Database Center (NBDC) and Database Center for Lif
]]><![CDATA[JBrowse 1.6.1 bugfix release]]>https://jbrowse.org/blog/2012/08/28/jbrowse-1-6-1-bugfix-release-index.html2012-08-28T06:00:00ZJBrowse 1.6.1 has been released, containing fixes for some small issues in the 1.6.0 release.
File
]]><![CDATA[JBrowse 1.6.0 released, includes feature descriptions and more!]]>https://jbrowse.org/blog/2012/08/25/jbrowse-1-6-0-released-includes-feature-descriptions-and-more-index.html2012-08-25T06:00:00ZI'm very pleased to announce the release of JBrowse 1.6.0! This release is not quite as major as the previous two releases, but there are still some nice things added.
As usual, this release comes in two flavors: the "minimal" release ([JBrowse-1.6.
]]><![CDATA[JBrowse 1.5.0 released, includes direct BigWig access!]]>https://jbrowse.org/blog/2012/08/13/jbrowse-1-5-0-released-includes-direct-bigwig-access-index.html2012-08-13T06:00:00ZI'm very pleased to announce the release of JBrowse 1.5.0! There are three headline features in this release. First, we've integrated a direct-access BigWig data backend, adapted from the [Dalliance Genome Explorer](http://www.biodalliance.org/
]]><![CDATA[JBrowse 1.4.2 released]]>https://jbrowse.org/blog/2012/07/12/jbrowse-1-4-2-released-index.html2012-07-12T06:00:00ZJBrowse 1.4.2 has been released, containing some small fixes for issues in the 1.4.1 release.
]]><![CDATA[JBrowse 1.4.1 released]]>https://jbrowse.org/blog/2012/07/10/jbrowse-1-4-1-released-index.html2012-07-10T06:00:00ZJBrowse 1.4.1 has been released, containing some small fixes for issues in the 1.4.0 release.
[JBrowse-1.4
]]><![CDATA[JBrowse 1.4.0 released, includes faceted track selection!]]>https://jbrowse.org/blog/2012/06/14/jbrowse-1-4-0-released-includes-faceted-track-selection-index.html2012-06-14T06:00:00ZJBrowse 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 b
]]><![CDATA[Poliovirus / XRate demo by Oscar Westesson]]>https://jbrowse.org/blog/2012/05/07/poliovirus-xrate-demo-by-oscar-westesson-index.html2012-05-07T06:00:00ZOscar Westesson has contributed a nice demonstration of using JBrowse 1.2.1 to display and compare performance of four different XRate grammars on the poliovirus genome.
]]><![CDATA[JBrowse 1.3.1 released]]>https://jbrowse.org/blog/2012/04/19/jbrowse-1-3-1-released-index.html2012-04-19T06:00:00ZJBrowse 1.3.1 has been released, this is a minor release with fixes for some bugs found in 1.3.0.
<![CDATA[JBrowse 1.3.0, a major release!]]>https://jbrowse.org/blog/2012/04/13/jbrowse-1-3-0-index.html2012-04-13T06:00:00ZJBrowse version 1.3.0 has arrived!
We have a long list of improvements in this release, some of which have been a long time coming. It's full speed ahead from here: more major new features are just around the corner!
This release comes in two flav
]]><![CDATA[JBrowse 1.2.2 released]]>https://jbrowse.org/blog/2012/03/25/jbrowse-1-2-2-released-index.html2012-03-25T06:00:00ZThis is a minor bugfix release, containing fixes for display of unstranded features and a correction to the tutorial HTML file that incorrectly suggested using flatfile-to-json.pl to format feature data from a BAM file.
JBrowse 1.2.2 can be download
]]><![CDATA[hg19 tarball updated to JBrowse 1.2.1]]>https://jbrowse.org/blog/2012/03/22/hg19-tarball-updated-to-jbrowse-1-2-1-index.html2012-03-22T06:00:00ZA new tar.gz file is available, containing a copy of JBrowse 1.2.1 with Human hg19 data. Being based on a more recent version of JBrowse, it should work much better than the previous hg19 tarball releases. Enjoy!
]]><![CDATA[JBrowse in Google Summer of Code 2012]]>https://jbrowse.org/blog/2012/03/16/jbrowse-in-google-summer-of-code-2012-2-index.html2012-03-16T06:00:00ZGreat news! JBrowse has been accepted to Google Summer of Code 2012 under the Genome Informatics umbrella organization. Many thanks to Reactome's Robin Haw for shepherding the Genome Informatics organization through the application process!
Are yo
]]><![CDATA[New JBrowse Lead Developer]]>https://jbrowse.org/blog/2012/01/13/new-jbrowse-lead-developer-index.html2012-01-13T06:00:00ZWe're excited to report that Robert Buels has joined the JBrowse team as lead developer, effective January 10, 2012. He succeeds Mitch Skinner, who created JBrowse in its modern form and more recently been working with the JBrowse "sister project", [
]]><![CDATA[DNA sequencing on your iPhone? There's an app for that]]>https://jbrowse.org/blog/2011/09/16/dna-sequencing-on-your-iphone-theres-an-app-for-that-index.html2011-09-16T06:00:00ZCourtesy of Dave Clements: JBrowse appears (and gets a laugh, for some reason) at 8:41 in this TED talk ("Welcome to the genomic revolution" by Richard Resnick).
In o
]]><![CDATA[JBrowse conference call]]>https://jbrowse.org/blog/2011/09/15/jbrowse-conference-call-index.html2011-09-15T06:00:00ZThe first JBrowse developers' conference call will be held on Monday Sept 19 at 2pm Pacific time. We intend for this to be a monthly event. Call details are below; we hope you will join in.
The main agenda topics for this first call will be:
In
]]><![CDATA[Summer 2011 update]]>https://jbrowse.org/blog/2011/08/03/summer-2011-update-index.html2011-08-03T06:00:00ZOver the summer the JBrowse project has been very capably assisted by two student interns. In Toronto, Natalie Fox has been working on extending the JBrowse user interface and feature set, while in Berkeley
]]><![CDATA[JBrowse is hiring!]]>https://jbrowse.org/blog/2011/04/06/jbrowse-is-hiring-index.html2011-04-06T06:00:00ZThe lead developer on the JBrowse team is moving on to pastures new: Mitch Skinner has accepted an offer to work at an exciting new medical genomics startup (which will, for the moment, remain nameless, but keep an eye out for their launch sometime i
]]><![CDATA[JBrowse 1.2.1 released]]>https://jbrowse.org/blog/2011/03/17/jbrowse-1-2-1-released-index.html2011-03-17T06:00:00ZJBrowse 1.2.1 is a maintenance release that fixes some bugs that were reported in 1.2. Get it here:
]]><![CDATA[JBrowse 1.2 released]]>https://jbrowse.org/blog/2011/02/17/jbrowse-1-2-released-index.html2011-02-17T06:00:00ZNew JBrowse release! This is version 1.2, which makes the server-side scripts much more scalable, includes a script for importing UCSC database dumps into JBrowse, and integrates Juan Aguilar's touch code for the iPad/iPhone. Code is here:
[http:/
]]><![CDATA[Touch the genome]]>https://jbrowse.org/blog/2010/12/18/touch-the-genome-index.html2010-12-18T06:00:00ZThanks to some great work by Juan Aguilar, JBrowse now runs on the iPad. Working with Lincoln Stein, Juan hooked up JBrowse to the iOS JavaScript touch/gesture callbacks.
]]><![CDATA[hg19 tarball updated]]>https://jbrowse.org/blog/2010/11/24/hg19-tarball-updated-index.html2010-11-24T06:00:00ZChris Tandiono reported a bug in the hg19 tarball, and supplied a script to fix the problem. The tarball has now been updated with the fix; you can download the new version here:
]]><![CDATA[JBrowse tarball for hg19 human genome data]]>https://jbrowse.org/blog/2010/11/11/data-mini-release-hg19-annotation-tarball-index.html2010-11-11T06:00:00ZSomething we get asked for a lot is data releases: tarballs of JBrowse JSON pre-generated from widely-used datasets, ready for you to plonk on your webserver, unzip, and serve to the world (perhaps after adding your own tracks, or making other mo
]]><![CDATA[Personal genomics website using JBrowse]]>https://jbrowse.org/blog/2010/10/11/personal-genomics-website-using-jbrowse-index.html2010-10-11T06:00:00ZThe folks over at genomesunzipped.org are trying an interesting experiment in personal genomics. A group of experts in fields related to personal genomics are analysing their own geno
]]><![CDATA[JBrowse website moved to Amazon cloud]]>https://jbrowse.org/blog/2010/10/11/jbrowse-website-moved-to-amazon-cloud-index.html2010-10-11T06:00:00ZThe jbrowse.org website is now hosted by Amazon Web Services. The human genome demo has been regenerated using a new UCSC-to-JBrowse adaptor.
]]><![CDATA[JBrowse 1.1 release]]>https://jbrowse.org/blog/2010/09/09/jbrowse-1-1-release-index.html2010-09-09T06:00:00ZJBrowse version 1.1 is released! You can find the code here: