Added commit flags to "annonate" method and CLI
* Switched from markdown to rst for readme
* Changed README
* Changed banner
* Changed to more modern setup.py implementation
+ Added distribute_setup.py script (backup)
Merge branch 'feature/better-setup' into develop
* Fixed banner image
Fixed README "bug"
Added param doc
Merge branch 'feature/splice-sites' into develop
Clean up of inline docs
*Removed* levels functionality completely
*Removed* deprecated chanjo-autopilot
*Removed* Interval class
Small docs fixes
Added new docs section about Python API
Mentioned cosmid
various docs fixes
Merge branch 'feature/stabilize-api' into develop
Updated changelog and bumped version
Merge branch 'release/v0.3.0'