Category Archives: News

GSoC Students Do Cool JBrowse Projects

I’m pleased to introduce two Google Summer of Code students who are working actively on Jbrowse projects: Pubudu Dodangoda is working on a social commenting extension for gene features. Saksham Saxena is working a module to manage synthetic chromosomes through GitHub. Pubudu is … Continue reading

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JBrowse-1.12.1: Maintenance Release

We are happy to announce JBrowse 1.12.1 release!   This is a maintenance release. JBrowse-1.12.1.zip – 4.9M file SHA1 bb917733f768744d703ab7b17b1f80040c055a78 JBrowse-1.12.1-dev.zip – 26M (development) file SHA1 737851bf52c0d537eb1c54b5a4b6a12d6736d2f0 Docker Image JBrowse-1.12.1-desktop-osx.zip – 48M (OSX 64bit) file SHA1 d766afe66ccb6eb754d1d329c097a447435d108b JBrowse-1.12.1-desktop-win.zip – 49M (Windows 32bit) file … Continue reading

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State of the Browser, 2016

It’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 tracker, for example) we think it’s high time for … Continue reading

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JBrowse-1.12.0: Open new genome from FASTA, in-line refseqs, NeatFeatures, Desktop

We 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 and OSX (based … Continue reading

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JBrowse-1.11.6 maintenance release

I’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 tracks and … Continue reading

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JBrowse-1.11.5 maintenance release

A 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 scrolling bug that affected … Continue reading

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JBrowse-1.11.4 maintenance release

I 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 … Continue reading

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Tutorial: exploring structural variation using JBrowse, from the tomato 150+ re-seq project

We 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 variation available in tomato. Tomato has been selected … Continue reading

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Poliovirus / XRate demo by Oscar Westesson

Oscar 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. View demo Download .zip (35M) Thanks Oscar!

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hg19 tarball updated to JBrowse 1.2.1

A 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! The new file … Continue reading

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