v0.6.4

• better handle BAI chunks (fixes #405 and #406)

v0.6.3

• Documentation improvements
• (Internal) Updated to Flow 0.21

v0.6.2

• Fixed a bug where the pileup track would shear on tile boundaries.
• Fixed an issue where coding regions in genes were off by one base pair.
• Added a "color by strand" viewing option to pileup tracks.
• The current version of pileup is now available via pileup.version
• (Internal) Upgraded to Flow 0.19
• (Internal) Switched to ES6 imports and reorganized source directories.

v0.6.1

• Major performance improvements, especially at coarse zoom levels.
• Clicking the coverage track now reports stats on that locus.
• Mismatches in the coverage track are more visible at coarse zoom levels.
• Removed vertical scroll bars from non-pileup tracks.
• Mitigated issue where pileup track could get out of sync with other tracks.

v0.6.0

• Visualizations can now accept options, for example:
  • viewAsPairs and colorByInsert are options for pileup.viz.pileup
  • vafThreshold is an option to pileup.viz.coverage
• The new Location Omnibox combines start & stop values.
• You can enter full ranges like “chr17:1,234-2,345” into the omnibox directly (useful for copy/paste).
• Coverage Track now shows all bases (including the reference) for high VAF mismatches
• Added support for track option menus. The pileup track now exposes “View as Pairs” and “Color by Insert” in the UI.
• You can re-sort the pileup around the center base using the options menu. Sorting happens automatically on the initial load and after jumps.
• Eliminated Moiré patterns and improved crispness for all tracks.
• Fixed a bug where coverage values were inaccurate.
• pileup now uses off-screen buffers for faster rendering. After the initial drawing, panning should be extremely smooth.
• Performance optimizations to the 2bit data source (i.e. the reference)
• Internal: Updated all React components to be ES6 classes and added types for their props and state.
• Internal: Using travis-weigh-in to track code size
• Internal: Added screenshot tests (via seltest)

v0.5.1

• Guard references to a symbol that caused failures when running under Node.js.
• Improved performance for deep pileups

v0.5.0

• Coverage track now shows frequency of variants
• Pileup tracks include a dotted center line to orient the viewer
• pileup.min.js shrinks from 588693 → 379914 (204kb = 35% smaller)
• Comes with source maps for pileup.js and pileup.min.js
• Updated to React 0.14 and dropped the data-pileupid hack
• Misc performance improvements
• Failed network request messages include the URL
• Bugfix: off-screen gene names are now hidden
• Bugfix: zooming in and out won't change the center base pair
• Bugfix: alignment mismatches are centered
• Bugfix: the reference track no longer needs to be the first
• Bugfix: clicking on mismatches shows read info popup

v0.4.0

• All tracks were migrated from D3/SVG→canvas. This results in a 4–5x speedup while panning.
• All tracks are now draggable.
• Alignments are displayed as pairs when applicable.
• Added a destroy method to safely tear down a pileup.
• Fixed a bug where VariantTrack didn't update after resize.
• Distributed bundles are built with NODE_ENV=production. This improves code size and ReactJS performance.
• ScaleTrack now includes arrow heads.
• Updated Flow from 0.12.0 → 0.16.0.

v0.3.0

• New track: CoverageTrack shows read depth for pileups
• New tracks: Location and Scale
• Added support for the GA4GH API as a source for alignment data.
• Major performance improvements while panning
• Factored out duplicated code across visualizations

v0.2.1

• Style fixes/improvements
• Restored code coverage reporting via Coveralls
• Removed some superfluous SVG elements
• Fixed flash of mismatches when the reference track loads after the pileup track
• Pileup track mismatches have opacities tied to their read quality (ala IGV)
• Mismatches change to rectangles as you zoom out
• Better reporting of when BAI files are being fetched