Roadmap: JBrowse

# Changelog / Upcoming Changes

## v0.5
- [x] update existing jbrowse instances on disk (adding new tracks, also support pulling info from apollo) f4206bc58448bb39e5fae31942477c45642a9fca
- [x] generate-names.pl http://gmod.org/wiki/JBrowse_Configuration_Guide#Name_Searching_and_Autocompletion
- [x] Allow forcing HTML rather than canvas ef1646fc375513143fd743841ac618720267dbc9
- [x] defaultTracks e6ef382e885381ab1606e44f397477014434aa82
- [x] http://gmod.org/wiki/JBrowse_Configuration_Guide#General_configuration_options acb5b6696880d517bf76b790e70496b714dd46c3, f93e44ee9cc01d2f83ccbfe7151b408c12d4b333
- [x] Bugfix: >12 sequences would exceed brewer colour limit and crash. Now cycles back to start. https://github.com/galaxyproject/tools-iuc/commit/3dadcef329a8881837293e354b21880a6ecd3ca9
- [x] Bugfix: Incorrect XML could be generated, causing a crash for automatically coloured, automatically scored bigwig tracks 2fd44398452799138fa5c95fa78996814c72d386
- [x] Bugfix: BlastXML tracks without a gff3 feature parent would crash. 4be3385

## v0.6

- [x] log support for bigwig tracks
- [x] REST endpoints
- [x] Accept data from chrom/len files, and from data tables
- [x] templated values in name / text field. E.g. ability to use "#date#" to get a dated category. Useful when updating pre-existing JBrowses with re-run analyses.
- [x] track metadata
- [x] Conda packages

## v0.7

- [x] Editing menus
- [x] Plugins
- [x] https://github.com/cmdcolin/gccontent
- [x] https://github.com/Arabidopsis-Information-Portal/ComboTrackSelector
- [x] Themes

## v0.8+

- [x] SPARQL endpoints
- [ ] more JBrowse plugins! (Specifically the one that links db_xrefs to upstream databases, such as IPR:000000 -> `http://....`)
- [x] https://github.com/cmdcolin/multibigwig
- [ ] https://github.com/cmdcolin/sashimiplot
- [ ] disable left-click action
- [ ] auto create blat?
- [ ] ... ? Ideas?
- [ ] enhance compat with blast XML data
- [ ] full support for protein files
- [ ] fix chrom selector upstream
- [x] css rules upstream
- [ ] support blast tabular data in 12 and 24 column variants

## v1.0

Some of these may get shifted around as time and requirements dictate

# Changelog