 Carl Eberhard
|
a13d13d077
|
Scatterplot: use named data provider, fix encoding of ids; pack scripts
|
2013-05-21 12:54:21 -04:00 |
|
|
Carl Eberhard
|
730a15657f
|
Fixes to phyloviz
|
2013-05-21 11:15:10 -04:00 |
|
|
Jeremy Goecks
|
2140a14bf0
|
Trackster: transparency and state fixes for variant painter.
|
2013-05-20 16:16:03 -04:00 |
|
|
Jeremy Goecks
|
834cbd6582
|
Pack script.
|
2013-05-20 13:48:08 -04:00 |
|
|
Jeremy Goecks
|
9768337e19
|
Trackster: add base functions for manipulating modes.
|
2013-05-20 13:41:58 -04:00 |
|
|
Carl Eberhard
|
df1927422c
|
Visualizations framework: allow users to associate custom visualizations with models, datatypes, etc. via an xml configuration file (visualizations_conf.xml)
|
2013-05-17 14:45:07 -04:00 |
|
|
Jeremy Goecks
|
2ac57c4d6f
|
Trackster: enable composite feature tracks. When feature/read tracks are composited, coverage data for each track is composited together.
|
2013-05-17 12:06:14 -04:00 |
|
|
Jeremy Goecks
|
e820a72bba
|
Viz framework: (a) add sam-to-bigwig converter and (b) Trackster bug fixes.
|
2013-05-15 16:15:12 -04:00 |
|
|
Jeremy Goecks
|
4b56e73742
|
Trackster: unify draw_helper functions for performance and clarity.
|
2013-05-15 10:09:55 -04:00 |
|
|
Jeremy Goecks
|
6fcfcf9ba4
|
Trackster bug fix: use computed mode rather than track mode.
|
2013-05-15 09:17:41 -04:00 |
|
|
Jeremy Goecks
|
57b1e15e98
|
Trackster: use deferred rather than flags to manage tile drawing.
|
2013-05-14 15:46:27 -04:00 |
|
|
Jeremy Goecks
|
384a0ddc38
|
Trackster: LinePainter improvements to use block_color when drawing coverage plots and refactor min/max finding to us underscore functions.
|
2013-05-14 13:15:02 -04:00 |
|
|
Jeremy Goecks
|
9569a1c801
|
Trackster: fix bug in variant track drawing.
|
2013-05-10 17:16:20 -04:00 |
|
|
Jeremy Goecks
|
4f3acda1ca
|
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.
|
2013-05-09 11:44:45 -04:00 |
|
|
Daniel Blankenberg
|
12b858f9cd
|
Make form input auto-focus declarative.
|
2013-05-08 10:58:52 -04:00 |
|
|
Daniel Blankenberg
|
fb0cd7b304
|
Pack scripts
|
2013-05-08 10:45:12 -04:00 |
|
|
Jeremy Goecks
|
76a267c3ff
|
Trackster: only query feature tracks for feature locations.
|
2013-05-03 10:52:11 -04:00 |
|
|
Jeremy Goecks
|
d420857e86
|
Trackster: add editable min, max labels to tracks.
|
2013-05-02 15:14:50 -04:00 |
|
|
Jeremy Goecks
|
dbe33372be
|
Trackster: implement generic functionality for adding and editing track min/max values. Also redraw by default on resize.
|
2013-05-02 13:15:02 -04:00 |
|
|
Jeremy Goecks
|
0a19ca75fe
|
Trackster: optionally clear tile cache when requesting a track redraw.
|
2013-05-02 10:58:19 -04:00 |
|
|
Jeremy Goecks
|
f78f5acbfb
|
Trackster: remove nodraw parameter because it is no longer needed.
|
2013-05-02 10:33:28 -04:00 |
|
|
Jeremy Goecks
|
8dd44babab
|
Trackster: whitespace fixes.
|
2013-05-02 09:41:17 -04:00 |
|
|
Jeremy Goecks
|
78d1075274
|
Trackster: make composite track draw helper compatible with dd4b953.
|
2013-05-01 15:08:25 -04:00 |
|
|
Jeremy Goecks
|
b3f509da1c
|
Visualization framework: (1) fix disappearing Y axis labels for line tracks and (2) update dataset dict to correspond with new description.
|
2013-05-01 14:04:23 -04:00 |
|
|
Jeremy Goecks
|
0aa8e61490
|
Trackster: refactoring to use dataset attributes rather than .dataset_id and .hda_ldda
|
2013-04-30 09:12:18 -04:00 |
|
|
Jeremy Goecks
|
ccd888511b
|
(a) Fetch sample names before drawing variant track and (b) update dataset metadata when changed.
|
2013-04-20 15:04:07 -04:00 |
|
|
Jeremy Goecks
|
f8235dae3b
|
Trackster: refactor variant sample labels and fix line-height issues.
|
2013-04-20 14:28:11 -04:00 |
|
|
Jeremy Goecks
|
262d43ad0b
|
Visual analysis enhancements: (a) do not manually convert to json because it is not necessary and (b) gracefully handle missing sample names.
|
2013-04-20 11:05:42 -04:00 |
|
|
Jeremy Goecks
|
dc47eb9b06
|
Trackster: use Deferreds to only drawn tiles only; this improves performance significantly.
|
2013-04-19 14:33:11 -04:00 |
|
|
Jeremy Goecks
|
c77a9ced8f
|
Trackster: fixes for calculating variant track height.
|
2013-04-19 11:53:00 -04:00 |
|
|
Jeremy Goecks
|
98d560193f
|
Automated merge.
|
2013-04-19 11:01:43 -04:00 |
|
|
Jeremy Goecks
|
3c28754e91
|
Trackster: better handling of variant track labels.
|
2013-04-19 10:56:44 -04:00 |
|
|
Daniel Blankenberg
|
6c6e08a7ef
|
Fixes for trackster visualizing single sample vcf and for getting colors of non-standard bases.
|
2013-04-18 15:39:32 -04:00 |
|
|
Daniel Blankenberg
|
4f620dd979
|
Auto Focus on first item on forms.
|
2013-04-18 13:14:14 -04:00 |
|
|
Carl Eberhard
|
57f8714725
|
History panel: ensure syncing of history state and hda states by passing hda dicts to get_history_dict; pack scripts
|
2013-04-17 16:36:01 -04:00 |
|
|
Jeremy Goecks
|
7ecde71639
|
Trackster: add summary and sample labels to variant track + small style adjustments.
|
2013-04-17 15:10:03 -04:00 |
|
|
Jeremy Goecks
|
8a376d2838
|
Whitespace additions.
|
2013-04-17 10:58:19 -04:00 |
|
|
Jeremy Goecks
|
d0c9c657be
|
Use full HDA/LDDA dict to get data into Trackster.
|
2013-04-17 10:25:36 -04:00 |
|
|
Carl Eberhard
|
12bdb2aec3
|
History panel: allow query val for hda_id to scroll specific hda into view, cleanup; browser tests: add download, info, and rerun button tests
|
2013-04-16 14:03:11 -04:00 |
|
|
Jeremy Goecks
|
ec903602ff
|
Visual analytics enhancements and fixes: (i) handle uncalled alleles in VCF display; (b) whitespace fixes; and (c) move methods so that non-feature tracks can be used when running tools; (d) fixes for SamDataProvider constructor; (e) fix for handling paired-end reads when using reference-based packing.
|
2013-04-16 09:24:45 -04:00 |
|
|
Jeremy Goecks
|
f1530d4e32
|
Fix bug in Trackster that offset difference indication between bases instead of over bases.
|
2013-04-15 13:29:34 -04:00 |
|
|
Jeremy Goecks
|
f74aea2019
|
Trackster: enhance VCF track to show sample data and summary data and use base coloring.
|
2013-04-15 13:20:25 -04:00 |
|
|
Jeremy Goecks
|
f442f2116d
|
Merge in stable branch.
|
2013-04-12 16:16:17 -04:00 |
|
|
Jeremy Goecks
|
de1a836a73
|
Fixes for running tools in Trackster.
|
2013-04-12 16:12:01 -04:00 |
|
|
Carl Eberhard
|
505684068b
|
history panel: move history options menu code into index.mako, localization pass; pack scripts
|
2013-04-11 16:48:47 -04:00 |
|
|
Carl Eberhard
|
062387374c
|
base_panels: move quota meter js into base_panels, provide bootstrapped user JSON, create Galaxy js namespace; history panel: don't use backbone-relational in dataset, user, or history; misc jsHint cleanup; expose_api: defend against no key provided; pack scripts
|
2013-04-11 13:00:38 -04:00 |
|
|
Aysam Guerler
|
959a335b67
|
Enhance button for trackster visualization in data display viewer
|
2013-04-10 17:30:27 -04:00 |
|
|
Aysam Guerler
|
28792f5e52
|
Enhance button for trackster visualization in data display viewer
|
2013-04-10 16:50:54 -04:00 |
|
|
Aysam Guerler
|
a6b0cdcfc4
|
Enhance button for trackster visualization in data display viewer
|
2013-04-10 13:19:10 -04:00 |
|
|
Carl Eberhard
|
b1c3cb55ff
|
Edit attributes: HDA name, info, annotation: display 'None' values in inputs as empty strings; History panel: remove last modal/alert
|
2013-04-10 12:22:11 -04:00 |
|