jbrowse
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GMOD
JBrowse 1, a full-featured genome browser built with JavaScript and HTML5. For JBrowse 2, see https://github.com/GMOD/jbrowse-components.
- search multiple data sources - categorized search results like ensembl - just show a table view of results for now
"virtual tracks" are tracks which display the results of running xrate on a window. As long as lazy loading (LH #4) is in place (along with tiled images), you can...
Build nicer packages than the .zip files currently made by `electron-packager`. Upload these to the releases in addition to the .zip files.
Make a CDS glyph that displays frame, phase, and translated AA sequences, depending on magnification. Simliar to http://search.cpan.org/~lds/Bio-Graphics-2.37/lib/Bio/Graphics/Glyph/cds.pm from GBrowse. Also make the ProcessedTranscript glyph use them instead of just...
We need a tutorial/HOWTO showing how to migrate an existing GBrowse installation to JBrowse, including discussions of the pitfalls and caveats (e.g. Perl callbacks). At first, this guide should describe...
Highlight seems to be broken, or is working inconsistently. I can reproduce this problem on the jbrowse.org demo using Chrome 65.0.3325.181, macOS Sierra 10.12.6. Just click on the highlight button...
The right click context menu give a 'highlight this match' option. This suggests that it would highlight the mate read but it highlights the current read. Ideally this would highlight...
It would be nice to support Trix index (ixx) for the name index. Current generate-names.pl will create a lot of files which may cause problems in JBrowse transferring, downloading and...
The renderAlignment code currently outputs on a single long line  The multi-line version(renderPrettyAlignment) is more readable but the coordinates that are outputted need to be verified 