| 42701ca | Loren Buhle | 07 January 2020, 18:38:32 UTC | Update README.md Updated with pointer to the external repo maintained by Maria. Will return this DNAnexus managed repo to archive. | 07 January 2020, 18:38:32 UTC |
| 6ab24f1 | Maria Nattestad | 11 January 2018, 23:49:07 UTC | Add MIT license | 11 January 2018, 23:49:07 UTC |
| 4de2fe0 | Maria Nattestad | 22 December 2017, 21:15:45 UTC | Fix basepair label positioning when annotation tracks are present | 22 December 2017, 21:15:45 UTC |
| 5d27f5a | Maria Nattestad | 22 December 2017, 19:47:08 UTC | Add back gorilla example with annotation | 22 December 2017, 19:47:08 UTC |
| 975fa9d | Maria Nattestad | 22 December 2017, 19:29:58 UTC | Fix bug affecting numeric sequence names | 22 December 2017, 19:29:58 UTC |
| 86abe33 | Calvin Bao | 22 December 2017, 19:01:57 UTC | Display subset of annotations (#4) * Display subset of annotations * Add message with information about annotation subsetting | 22 December 2017, 19:01:57 UTC |
| e081d7d | Maria Nattestad | 22 December 2017, 18:12:25 UTC | Add links out to UCSC with input field for flexible database selection | 22 December 2017, 18:12:25 UTC |
| 4e1dd98 | Maria Nattestad | 22 December 2017, 17:19:15 UTC | Add y-axis bp labels and improve styling for grid lines, labels, and bp labels | 22 December 2017, 17:19:15 UTC |
| a5a2c28 | Maria Nattestad | 22 December 2017, 01:08:40 UTC | Add genomic coordinates to reference sequence grid lines | 22 December 2017, 01:08:40 UTC |
| e7e6e77 | Maria Nattestad | 21 December 2017, 19:47:25 UTC | Minor refactoring | 21 December 2017, 19:47:25 UTC |
| f7ec9b6 | Maria Nattestad | 21 December 2017, 19:36:54 UTC | Make a better inspector for annotation click events | 21 December 2017, 19:36:54 UTC |
| 5771d28 | Maria Nattestad | 21 December 2017, 18:55:13 UTC | Make axis titles (query/ref) editable | 21 December 2017, 18:55:13 UTC |
| bc78a3e | Maria Nattestad | 21 December 2017, 18:44:40 UTC | Add zoom instructions under dot plot | 21 December 2017, 18:44:40 UTC |
| 3d50a49 | Maria Nattestad | 21 December 2017, 01:38:11 UTC | Use zoom stack to zoom out one level at a time | 21 December 2017, 01:38:11 UTC |
| 7e8f910 | Maria Nattestad | 20 December 2017, 17:24:54 UTC | Refresh examples and update About page with new resources | 20 December 2017, 17:24:54 UTC |
| 5f71498 | Maria Nattestad | 19 December 2017, 17:32:12 UTC | Add buttons for loading alignments with memory estimates | 19 December 2017, 17:32:12 UTC |
| 228b44a | Maria Nattestad | 18 December 2017, 19:57:17 UTC | Annotation styles (#3) * Add annotation track handles * Make track rect, text, and arrow additive styles and consolidate code * Add more arrow styles * Refactor annotation drawing so Y is a rotation of X * Add styling options for labels | 18 December 2017, 19:57:17 UTC |
| 5c0cb56 | Maria Nattestad | 14 December 2017, 19:57:51 UTC | Merge pull request #2 from dnanexus/add_arrow_annotations Add arrow-styled annotations | 14 December 2017, 19:57:51 UTC |
| 7d952ca | Maria Nattestad | 14 December 2017, 19:54:21 UTC | Fix bugs and refactor drawRect and drawTriangle annotations | 14 December 2017, 19:54:21 UTC |
| 5e32512 | Calvin Bao | 14 December 2017, 18:11:48 UTC | fix bug | 14 December 2017, 18:11:48 UTC |
| ad50871 | Calvin Bao | 14 December 2017, 04:10:29 UTC | Address review | 14 December 2017, 04:10:29 UTC |
| 9258316 | Calvin Bao | 13 December 2017, 23:45:39 UTC | Merge branch 'master' into add_arrow_annotations | 13 December 2017, 23:45:39 UTC |
| d131e1c | Calvin Bao | 13 December 2017, 23:35:51 UTC | adjust positions of arrow annotations | 13 December 2017, 23:35:51 UTC |
| 4efa3f7 | Calvin Bao | 13 December 2017, 23:31:42 UTC | Add styling for arrows | 13 December 2017, 23:31:42 UTC |
| 8a2d488 | Maria Nattestad | 13 December 2017, 18:06:46 UTC | Minor aesthetic improvements | 13 December 2017, 18:06:59 UTC |
| df2328e | Maria Nattestad | 13 December 2017, 00:45:54 UTC | Optimize by bundling draw cycles; fix selection annotation drawing bug | 13 December 2017, 00:45:54 UTC |
| 6450b4b | Maria Nattestad | 12 December 2017, 20:03:26 UTC | Add spinner to show when files are loading | 12 December 2017, 20:03:26 UTC |
| 4e49254 | Maria Nattestad | 12 December 2017, 18:54:40 UTC | Update examples with DNAnexus links expiring Dec 12, 2018 | 12 December 2017, 18:54:40 UTC |
| 5e52363 | Maria Nattestad | 12 December 2017, 18:41:42 UTC | Add click to select Track and display track styles table | 12 December 2017, 18:41:42 UTC |
| 27ffdf1 | Maria Nattestad | 11 December 2017, 23:27:51 UTC | Add better description to DotPrep.py header | 11 December 2017, 23:27:51 UTC |
| 54df0de | Maria Nattestad | 11 December 2017, 18:51:36 UTC | Finish support for multiple files through URLs and file selection | 11 December 2017, 18:51:36 UTC |
| 7aa381c | Maria Nattestad | 09 December 2017, 00:12:59 UTC | Add (invisible for now) support for multiple annotation files | 09 December 2017, 00:12:59 UTC |
| d03a756 | Maria Nattestad | 08 December 2017, 23:19:28 UTC | Fixed a bug where file blob was restricted to reading from a specific range | 08 December 2017, 23:19:28 UTC |
| d289937 | Maria Nattestad | 08 December 2017, 00:17:07 UTC | Compress display name for tiny sequences | 08 December 2017, 00:17:07 UTC |
| 137945a | Maria Nattestad | 07 December 2017, 23:11:52 UTC | Add dot plot style options and fixes | 07 December 2017, 23:11:52 UTC |
| 93a9784 | Maria Nattestad | 07 December 2017, 22:08:31 UTC | Make dotted ends match line color for alignments | 07 December 2017, 22:08:31 UTC |
| 2a8f058 | Maria Nattestad | 07 December 2017, 21:58:46 UTC | Make Dot link in navbar reset inputs | 07 December 2017, 21:58:46 UTC |
| 20596a2 | Maria Nattestad | 07 December 2017, 19:30:11 UTC | Fix bug in DotPrep.py crashing when queries have no unique alignments | 07 December 2017, 19:30:11 UTC |
| 0f32397 | Maria Nattestad | 07 December 2017, 01:27:56 UTC | Color forward and reverse alignments blue and red | 07 December 2017, 01:27:56 UTC |
| 37f1778 | Maria Nattestad | 04 December 2017, 19:54:54 UTC | Add style framework with auto-generated UI | 04 December 2017, 19:54:54 UTC |
| d813c72 | Maria Nattestad | 01 December 2017, 17:57:51 UTC | Clean up console logs in index reading | 01 December 2017, 17:57:51 UTC |
| d1233b6 | Maria Nattestad | 01 December 2017, 17:55:32 UTC | Make number of overview alignments a parameter in DotPrep.py | 01 December 2017, 17:55:32 UTC |
| 497c067 | Maria Nattestad | 01 December 2017, 01:05:54 UTC | Finished functionality for reading from coords based on index | 01 December 2017, 01:05:54 UTC |
| 01cd050 | Maria Nattestad | 30 November 2017, 22:10:16 UTC | Add styles object for Track | 30 November 2017, 22:10:16 UTC |
| 8361cb7 | Maria Nattestad | 30 November 2017, 19:59:01 UTC | Got most of reading from indexed file working | 30 November 2017, 19:59:01 UTC |
| ec8311e | Maria Nattestad | 30 November 2017, 18:41:04 UTC | Fix orientation and indexing in DotPrep.py | 30 November 2017, 19:38:13 UTC |
| 92c33ac | Maria Nattestad | 30 November 2017, 00:01:07 UTC | Refactor/reorganize setup and draw functions | 30 November 2017, 00:01:07 UTC |
| 9c08c6c | Maria Nattestad | 29 November 2017, 23:32:49 UTC | Enable click selection of Ref/Query along with their matching sequences | 29 November 2017, 23:32:49 UTC |
| 97d9769 | Maria Nattestad | 29 November 2017, 18:51:44 UTC | Enable reading from the coords index for layout and overview | 29 November 2017, 18:51:44 UTC |
| cda7710 | Maria Nattestad | 29 November 2017, 00:14:39 UTC | Remove bug leftover from testing | 29 November 2017, 00:14:39 UTC |
| e8e6d17 | Maria Nattestad | 27 November 2017, 19:11:29 UTC | Move inputs to a separate front page by incorporating VisToolTemplate | 27 November 2017, 19:11:29 UTC |
| 3a1bdfb | Maria Nattestad | 23 November 2017, 00:37:11 UTC | Overhaul DotPrep.py to cleanly create new coords and coords.idx output | 23 November 2017, 00:37:11 UTC |
| 3c56e77 | Maria Nattestad | 14 November 2017, 01:03:57 UTC | Remove unneeded column number typing | 14 November 2017, 01:03:57 UTC |
| bb12207 | Maria Nattestad | 14 November 2017, 00:57:53 UTC | Add ability to load files from local computer | 14 November 2017, 00:57:53 UTC |
| 0ca897a | Maria Nattestad | 11 November 2017, 04:41:15 UTC | Rearrange left panel | 11 November 2017, 04:41:15 UTC |
| 8708e59 | Maria Nattestad | 11 November 2017, 04:35:22 UTC | Fix readme link | 11 November 2017, 04:35:22 UTC |
| bd362d2 | Maria Nattestad | 11 November 2017, 04:33:00 UTC | Store examples locally | 11 November 2017, 04:33:00 UTC |
| 9e7c26e | Maria Nattestad | 11 November 2017, 00:08:21 UTC | Test local file reading | 11 November 2017, 00:08:21 UTC |
| 17e8608 | Maria Nattestad | 11 November 2017, 00:02:46 UTC | Add links and instructions between Dot and its README | 11 November 2017, 00:02:46 UTC |
| 9a8a6f8 | Maria Nattestad | 10 November 2017, 23:54:03 UTC | Add README | 10 November 2017, 23:54:03 UTC |
| e7a5683 | Maria Nattestad | 10 November 2017, 01:00:09 UTC | Get annotation on query/y axis; filter annotations that go outside boundaries | 10 November 2017, 01:00:09 UTC |
| 44e3ec1 | Maria Nattestad | 09 November 2017, 23:13:02 UTC | Add zoomable annotation for the ref/x axis | 09 November 2017, 23:13:02 UTC |
| c25484e | Maria Nattestad | 09 November 2017, 20:00:07 UTC | Add test files and bootstrap css | 09 November 2017, 20:00:07 UTC |
| 03141e5 | Maria Nattestad | 09 November 2017, 19:59:21 UTC | Organize annotation data and refactor zoom | 09 November 2017, 19:59:21 UTC |
| 5c96533 | Maria Nattestad | 09 November 2017, 19:58:34 UTC | Style panel with bootstrap | 09 November 2017, 19:58:34 UTC |
| 15cbb7b | Maria Nattestad | 09 November 2017, 00:55:49 UTC | Add link to new DotPrep.py script in getting started | 09 November 2017, 00:55:49 UTC |
| 86c7149 | Maria Nattestad | 09 November 2017, 00:49:50 UTC | Consolidated script from Assemblytics to create coords file | 09 November 2017, 00:49:50 UTC |
| 6166bfd | Maria Nattestad | 08 November 2017, 23:39:34 UTC | Add instructions and examples to panel; color alignments by uniqueness tag | 08 November 2017, 23:39:34 UTC |
| c6034ba | Maria Nattestad | 08 November 2017, 21:10:27 UTC | Get zoom working for grid lines and labels | 08 November 2017, 21:10:27 UTC |
| 49af73b | Maria Nattestad | 07 November 2017, 23:52:42 UTC | Get zoom working for alignments in canvas | 07 November 2017, 23:52:42 UTC |
| 91981dc | Maria Nattestad | 03 November 2017, 22:59:32 UTC | Add input spec for inputting files by URL Enter URL into text box and hit enter or add it to the URL itself (GET). | 03 November 2017, 22:59:32 UTC |
| 6734a21 | Maria Nattestad | 03 November 2017, 21:02:08 UTC | Save js dependencies locally | 03 November 2017, 21:02:08 UTC |
| d69e4a5 | Maria Nattestad | 20 October 2017, 19:36:18 UTC | Add annotation track framework | 20 October 2017, 19:36:18 UTC |
| 6b1c59c | Maria Nattestad | 20 October 2017, 17:34:56 UTC | Move canvas into position to cover inner plot only | 20 October 2017, 17:34:56 UTC |
| 955da52 | Maria Nattestad | 20 October 2017, 00:10:39 UTC | Replace canvas with SVG for all except alignments | 20 October 2017, 00:10:39 UTC |
| 5833092 | Maria Nattestad | 19 October 2017, 21:24:38 UTC | Add Assemblytics output files for testing | 19 October 2017, 21:24:38 UTC |
| 0b48c40 | Maria Nattestad | 13 October 2017, 23:18:58 UTC | Create state variables for ref/query subsets | 13 October 2017, 23:18:58 UTC |
| a1b463f | Maria Nattestad | 29 September 2017, 22:02:07 UTC | Wrap DotApp around DotPlot Separation of concerns so DotApp includes UI for settings, inspecting files, etc. DotPlot has only the plot itself. The surrounding application only has to include DotApp and hook it up with a few callbacks to connect to where we load files from, and save files to, the platform or the local computer. Those connections to the rest of the world are the only parts that should be outside DotApp. | 29 September 2017, 22:02:07 UTC |
| 6c116e6 | Maria Nattestad | 22 September 2017, 22:40:34 UTC | Add axis labels with contig/ref names X-axis labels are rotated 45 degrees. | 22 September 2017, 22:40:34 UTC |
| 9843f8c | Maria Nattestad | 22 September 2017, 21:59:46 UTC | Add grid with sequence boundaries Also add axis titles (ref and query). | 22 September 2017, 21:59:46 UTC |
| fac3488 | Maria Nattestad | 22 September 2017, 21:16:37 UTC | Shift plotting area to make room for axis labels | 22 September 2017, 21:16:37 UTC |
| e8c02f7 | Maria Nattestad | 22 September 2017, 20:27:05 UTC | Basic dot plot with alignment lines only No axes, annotation, interaction, or data loading yet. | 22 September 2017, 20:27:05 UTC |
