 Jeremy Goecks
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c5a5d0347b
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Fix bugs that prevented saving visualizations from Circster. To do this, introduced a mixin for custom toJSON methods. Pack scripts.
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2014-02-05 16:22:17 -05:00 |
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Jeremy Goecks
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95b5b0a187
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Circster fixes for f4832c4
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2014-01-21 19:50:13 -05:00 |
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Jeremy Goecks
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b675432a2c
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Replace Backbone-relational usage with manually model chaining and remove backbone-relational scripts. Fix default colors bug in Trackster. Pack scripts.
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2013-11-26 14:50:41 -05:00 |
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Jeremy Goecks
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5d1ffac35b
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Visualization framework: code cleanup.
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2013-10-11 12:03:55 -04:00 |
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Jeremy Goecks
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7d6d29158a
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Trackster: (a) fix bug that unintentionally modified drawing region; (b) more reference track cleanup; (c) remove console logging statements. Pack scripts.
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2013-10-11 11:53:13 -04:00 |
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Aysam Guerler
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5b1c997998
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Introducing backbone based modal into Trackster and Circster
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2013-09-30 14:11:38 -04:00 |
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Jeremy Goecks
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3e42d82b57
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Trackster: bug fixes and documentation improvements. Pack scripts.
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2013-09-24 17:17:14 -04:00 |
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Aysam Guerler
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5a05a52775
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Unify parameter and url access in front end
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2013-08-20 18:51:47 -04:00 |
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Jeremy Goecks
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979c041d65
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Trackster performance fix: extend Cache to support any object that can be converted to a String. Use this enhancement to avoid creating Backbone objects, which can be slow.
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2013-06-12 16:02:19 -04:00 |
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Jeremy Goecks
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d618359898
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Trackster: fix for subsetting variant tracks.
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2013-05-22 14:47:37 -04:00 |
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Jeremy Goecks
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7d7f04a5b4
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Viz framework fixes: (a) add hda_ldda attribute to API dicts of HDAs and LDDAs; (b) remove summary tree from Circster; (c) make Circster compatible with recent change to get HDAs from API. Pack scripts.
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2013-05-21 14:37:51 -04:00 |
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Jeremy Goecks
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4f3acda1ca
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Visualization framework: replace summary_tree with bigwig datatype for all feature track coverage data, yielding better performance and a standardized approach for working with coverage data. Update Trackster to work with bigwig coverage data.
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2013-05-09 11:44:45 -04:00 |
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Jeremy Goecks
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9c97ac4854
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Trackster enhancements: (a) rename reference data manager to more appropriate name; (b) fetch reference data more readily so that variants can be drawn even when not zoomed way in; and (c) use base letters to denote variants only when there is sufficient room.
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2013-02-28 16:54:26 -05:00 |
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Jeremy Goecks
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a5f4b13c98
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Trackster: add subsetting functionality to data manager and enable subsetting for line tracks.
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2013-02-21 17:10:54 -05:00 |
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Jeremy Goecks
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1791c8f57c
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Trackster: subset reference data when available.
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2013-02-21 14:11:09 -05:00 |
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Jeremy Goecks
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6ebb660cba
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Trackster: prevent data requests for very small regions by using a (configurable) minimum region size. This improves performance when zoomed in on small regions. Pack scripts.
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2013-02-19 10:16:21 -05:00 |
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Jeremy Goecks
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4f8e9afa7f
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Use strict equality operators.
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2013-02-15 12:44:08 -05:00 |
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Jeremy Goecks
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f41b3d3883
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Circster: use chords to denote chromosome interactions data.
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2012-10-23 11:06:27 -04:00 |
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Jeremy Goecks
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069092f96b
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Code cleanup in vis framework.
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2012-10-22 10:47:46 -04:00 |
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Jeremy Goecks
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19d968863c
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Circster, cleanup for fetching more data: do not fetch more data for summary tree and use linear function for fetching more bigwig data.
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2012-10-20 16:39:39 -04:00 |
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Jeremy Goecks
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636e398345
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Make Trackster use generic visualization save functionality.
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2012-10-20 13:16:22 -04:00 |
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Jeremy Goecks
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64670ceb98
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Set up track config in BackboneTrack objects and use config in Circster.
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2012-10-19 14:02:23 -04:00 |
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Jeremy Goecks
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9c953192be
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Add backbone model, collection, and view for configuration settings. Pack scripts.
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2012-10-19 11:55:49 -04:00 |
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Jeremy Goecks
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d0bdd8c525
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When adding datasets to visualization, pass dbky directly rather than in dict.
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2012-10-16 11:32:55 -04:00 |
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Jeremy Goecks
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be2fb52e6b
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Circster: enable tracks to be added dynamically.
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2012-10-16 11:26:42 -04:00 |
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Jeremy Goecks
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ef2c8f54ec
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Viz client-side framework: generalize add_datasets function and change name to select_datasets, general code cleanup, and packed scripts.
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2012-10-12 17:22:51 -04:00 |
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Jeremy Goecks
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acd0a5d6ec
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Circster: support data indexing and loading for datasets not previously indexed. Also add visual indicator when drawing/loading tracks.
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2012-10-11 10:31:13 -04:00 |
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Jeremy Goecks
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f0ef51b957
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Enable circster to accept a dataset to add to visualization. Also, make visualization creation more flexible and some small refactoring for JS visualization objects.
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2012-10-05 16:01:55 -04:00 |
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Jeremy Goecks
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69109c9d09
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Circster: show more data when zoomed in.
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2012-10-02 11:17:22 -04:00 |
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Jeremy Goecks
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992669d816
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Viz/UI framework fixes and enhancements. Pack scripts and add new packed scripts.
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2012-09-28 12:07:56 -04:00 |
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Jeremy Goecks
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337b9938b0
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Viz framework: (a) fix embedded visualizations and (b) bookmarking.
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2012-09-27 17:35:04 -04:00 |
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Jeremy Goecks
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e788315e30
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Fixes for ReferenceTracks to make compatible with recent refactoring.
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2012-09-25 10:52:28 -04:00 |
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Jeremy Goecks
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dde34357f4
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Viz framework: (a) improvements in setting dataset type when returning infomation; (b) transition Circster to use GenomeDataManager rather than custom data structures.
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2012-09-25 09:18:00 -04:00 |
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Jeremy Goecks
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75f936db5f
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Add requireJS support for data, visualization, tools and update dependencies.
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2012-09-21 10:12:01 -04:00 |
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James Taylor
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e6ce7b2895
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trackster: merge
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2012-09-17 12:06:02 -04:00 |
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James Taylor
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207ec0bf6f
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trackster: starting to split tackster up and load using require.js
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2012-09-17 11:49:31 -04:00 |
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Jeremy Goecks
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ba70f84b8e
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Bug fixes for changeset 6243b992762c that enable tools to be run in Trackster. Also add URL to all datasets and pack scripts.
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2012-09-15 17:06:36 -04:00 |
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Jeremy Goecks
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dd668184dc
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Viz framework refactoring: remove tracks controller, moving code that handles data requests to the API and code that manages track browsers to visualization controller.
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2012-09-15 16:08:41 -04:00 |
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Jeremy Goecks
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f4a430961c
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Fixes for controller mixin hierarchy. Move track config response from tracks controller to API datasets controller.
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2012-09-14 17:03:11 -04:00 |
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Jeremy Goecks
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044223adc4
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Bug fix and code cleanup for recent visualization commits.
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2012-09-13 09:30:42 -04:00 |
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James Taylor
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fdbe49d665
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js: introducing a requirejs starting with circster. circster.js is a pure AMD module. visualization.js is AMD/browser compatible
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2012-09-12 15:38:52 -04:00 |
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James Taylor
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3f7d9c3f39
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circster: pull out circster code an encapsulate
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2012-09-11 15:43:09 -07:00 |
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James Taylor
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6aeff2dc05
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circster: moving some rendering code around to enable faster bigwig rendering, adding a Base class using Backbone style inheritence
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2012-09-11 15:24:26 -07:00 |
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James Taylor
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4ec0018c61
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circster: render in entire window, ensure initially entire plot fits in view and is centered
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2012-09-10 17:40:56 -04:00 |
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Jeremy Goecks
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e8e25ec41a
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Circster enhancements: (a) dragging and zooming; and (b) fill complete palette.
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2012-09-08 12:08:33 -05:00 |
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Jeremy Goecks
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0d2a7cf7ea
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Add feature search to Trackster; typing in location box will search tracks in visualization for features that start with entered text. Works with both GFF/GTF and BED datasets. Fixes #611
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2012-09-05 17:26:43 -04:00 |
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Jeremy Goecks
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97ffa48a2b
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Add bigwig/bigbed support to Circster. Pack scripts.
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2012-07-24 14:28:08 -04:00 |
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Jeremy Goecks
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efc17f5f5f
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Render all tracks in Circster using track preferences.
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2012-07-12 13:21:16 -04:00 |
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Jeremy Goecks
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ca89711e1b
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Visualization framework enhancements: (a) support for unpacking complete genome/trackster visualizations and (b) Circster view now uses genome visualizations rather than individual datasets as model.
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2012-07-09 09:45:34 -04:00 |
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Jeremy Goecks
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5571ce52ea
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Make bookmarks available in shared Trackster visualizations.
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2012-07-05 09:31:19 -04:00 |
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