Commit Graph

234 Commits

Author SHA1 Message Date
Bruce Martin
b0562a11fd scale point size for graph and scatter plots (#903)
* scale point size for graph and scatter plots

* improve comments
2019-08-27 14:12:53 -07:00
Bruce Martin
b309367bb0 Add hover-over highlighting to the scatterplot (#900)
* small perf improvement - do not recreate functions each time component is updated

* add hover-over highlighting to scatterplot
2019-08-27 14:01:30 -07:00
Bruce Martin
b359a610da tooltips improvements (#896)
* add and fix tooltips on toolbar

* move tooltips below buttons

* add global definition for tooltip hover over delay
2019-08-22 20:56:33 -07:00
Bruce Martin
0f36b49840 Graph/scatterplot improvements (#893)
* many graph/scatterplot fixes: 722, 882, 758, 886

* fix e2e test breakage caused by graph transform work

* convert webgl point shaders to use flags rather than explicit point size

* remove unused packages from dependencies

* fix typo in regl prop name

* factor common code into util helper file

* legibility tweaks
2019-08-22 20:56:05 -07:00
Colin Megill
03baa1ac0b overflow title (#858) 2019-08-05 14:08:41 -04:00
Bruce Martin
906d65c06f fix binning error in continuous data histogram (#869) 2019-08-05 10:40:56 -07:00
Colin Megill
d16a69e158 bump version to 0.11.0 (#850)
* bump version to 0.11.0

* manually fix version number
2019-07-16 14:27:41 -04:00
Severiano Badajoz
3d6bb88556 improve performance around category highlighting (#849)
* remove function call and add comment

* separate crossfilter size calc into memoized function
2019-07-15 16:00:23 -07:00
Bruce Martin
e199b14259 correctly handle float columns which only contain NaN (#848) 2019-07-15 14:49:33 -07:00
Severiano Badajoz
9c05aa6766 remove selection interaction from categorical value label (#847) 2019-07-15 11:32:42 -07:00
Severiano Badajoz
3833bada54 style mini-histogram popups (#845)
* popup styling changes

* change to target hover only and change delay

* change popover wording

* change popover wording
2019-07-13 16:52:00 -07:00
Colin Megill
777214cc14 upgrade lodash (#844) 2019-07-11 18:35:57 -04:00
Severiano Badajoz
9f0f60b5eb add point dilatation on hover (#841)
* enable centroid

* introduce new sizing

* scale point size based off hovered category

* add styling

* fix margins

* disable centroid labels

* remove unused code and add detail to comment

* remove cell dilation on selection toggle

* move hover to name label

* hover on value except for checkbox

* add border radius to value
2019-07-11 15:33:44 -07:00
Severiano Badajoz
ca20add577 reset colorAccessor and colorMode if colored diffexp gene is removed (#843)
* add action to clear colorMode and colorAccessor if diffexp is removed

* create new colorHelper function

* creater colorHelper for conditionally setting state

* add abbr

* revert abbr
2019-07-11 14:12:38 -07:00
Severiano Badajoz
941c297363 categorical vs continuous mini histograms (#827)
* comment

* add histogram functionality to Dataframe; port category occupancy to use it

* fix binning and create histogram for continous by catagorical

* Remove unnecessary logs

* Begin work on KDE

* Replace broken KDE with working histogram

* Define domain and range based on data from histogram

* Fix occupancy

* Add continuous obs and switch to canvas

* Stop value from always rerendering

* clear before render

* Clear canvas on render

* refactor categorical occupancy to canvas

* Remove log

* simplify finding max

* refactor kde->histogram and occupancy->bins

* refactor svg -> canvas

* rename to occupancy stack

* create popup

* add metadata and categorical values to popup

* fix overflow

* remove zeros info

* style graph

* fix shouldComponentUpdate to look for world changes

* change categorySelected -> categoryValueSelected

* refactor out render

* remove comment

* conditionally have bottom border

* remove diff comp

* remove comments

* remove unnecessary mapping

* Add comments describing drawing functions

* comments

* flip comparison order

* remove logging

* move default to parameter

* move defaults to parameter

* disable popover if not showing histogram

* fix wording and styling

* add line break
2019-07-09 11:19:01 -07:00
Severiano Badajoz
acdc810f82 disable centroids (#833)
* disable hover actions

* Remove action firing

* Remove disabled on action type and leave function call commented
2019-07-08 15:15:50 -07:00
Severiano Badajoz
334b8bb8da draw labels marking the centroids of category value clusters (#809)
* Connect mouse over events to reducer actions

* Change Styling on hover

* Rename reducer actions to be more descriptive

* Reorder reducer in cascade

* Create centroid calculation util

* Whitespace

* Typo fix, use correct action

* Create centroid calc util

* Create centroid svg setup

* Refactor existing svg layer to toolSVG

* Change calcCentroid signature and centroidXY to match mapPointToScreen

* Add id and styling

* Run prettier

* Set z-index to 999

* Draw the label

* Introduce the centroid SVG, refactor code to allow both SVG layers

* Add text label and compute radius based on population

* Implement optional chaining

* Update font family

* Optimize calcMeanCentroid()

* Create and utilize calcMedianCentroid()

* Remove mass circle from label

* Remove styling change on hover

* Remove reducer action logs

* Prettier

* Swap out binds for arrow functions

* Style text

* switch from selectAll() to select()

* Reflect centroid container's purpose in id

* Remove mass from the output

* Swap to obj

* Add finite check

* Don't draw centroid if no finite values

* Fix finite check

* Remove log

* Toggle label coloring based on colorBy state

* Pass cursor events through centroid svg
2019-06-13 15:40:57 -07:00
Colin Megill
6aeefb0fe6 menubar (#804)
* menubar 1

* zoom switching

* centering, pixel perfect canvas

* remove dead args and code

* clipping

* remove log

* if

* connect props

* lint

* undo

* logo left, componetize

* graph back to full height

* shadow to top

* do not prematurely call event handlers during render

* change test to deal with async histogram creation

* left section padding

* lint

* adjust graph to account for top bar,

* lasso tests

* refine histogram tests

* remove testing (onlys)
2019-06-13 15:15:43 -07:00
Charlotte Weaver
eac514e04d update favicon (#814) 2019-06-13 11:29:27 -07:00
Justin Kiggins
9f9393a486 adds section on risks of hosted instances (#807)
Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>
2019-06-04 09:16:11 -07:00
Charlotte Weaver
1d6bb032a3 remove async from describe blocks (#805) 2019-06-03 14:59:16 -07:00
Bruce Martin
ca9a6796d8 release 0.10.1 (#797) 2019-05-30 13:44:42 -07:00
Bruce Martin
a6142bdf93 improve graph scale and centering (#796)
* add gutter to embedding canvas

* improve layout scale and translate

* fix lint

* pin tables to version 3.5.1

* fix lasso coordinate smoke tests
2019-05-30 13:31:41 -07:00
Bruce Martin
c6252825f3 release 0.10.0 (#794) 2019-05-29 16:55:43 -07:00
Colin Megill
862d8feb5e x (#792) 2019-05-29 12:23:30 -04:00
Bruce Martin
1ef77d1596 fix misconfiguration for history management (#787) 2019-05-24 21:01:11 -07:00
Bruce Martin
3dc45d6330 do not hard-wire column names in annotations (#785)
* enforce column name uniqueness for obs and var

* parameterize the column name containing obs and var user-readable names

* use the new annotation index value from schema

* update f/e unit tests

* PR review suggestions

* lint
2019-05-24 21:00:54 -07:00
Bruce Martin
e941c1a496 scaling omitted from event handlers (#789)
* scaling omitted from event handlers

* fix smoke tests
2019-05-24 07:00:04 -07:00
Colin Megill
a657eb3152 Logo (#782)
* logo, black

* fixes

* remove template, move header
2019-05-23 11:47:24 -04:00
Bruce Martin
ef7c26e799 correctly handle selection of trunctated categories (#781) 2019-05-23 08:46:22 -07:00
Bruce Martin
49af278de7 cleanup memoiziation in graph component (#783) 2019-05-22 17:37:18 -07:00
Bruce Martin
2357d0c1b8 layout change UI (#776)
* add layout to schema

* add layout choice action and reducer

* multi layout UI

* update unit tests

* add missing file

* update test schema

* fix duplicate test id

* fix tabs

* PR lint

* fix pytest
2019-05-22 13:21:33 -07:00
Bruce Martin
fcc05f6a00 coordinate system fixes for embedded graph (#768)
* change pan speed to 1 per issue #722

* correct handle scaling of graph when aspect ratio less than one

* add package lock

* add invert to our scale functions

* correctly transform to/from gl coordinates

* remove unused import

* fix naming of import

* update smoke tests
2019-05-20 14:22:41 -07:00
Bruce Martin
de3407d875 change scripts to support windows (#775) 2019-05-20 11:42:57 -07:00
Charlotte Weaver
2d4e827bea wait for element before getting text/html (#777) 2019-05-20 11:35:53 -07:00
Bruce Martin
1fa4838863 npm (js) package dependency updates (#765)
* JS package dependency updates

* additional package updates

* more package version updates

* more js package updates

* more JS dependency updates
2019-05-20 10:11:49 -07:00
Bruce Martin
efa1709158 add multi-layout support to back-end (#766)
* add multi-layout support to back-end

* remove obsolete code

* temporary code to apply heuristic choice of default layout

* fix tests

* update python tests

* more py lint

* PR review changes

* more PR lint

* PR lint
2019-05-16 14:49:22 -07:00
Bruce Martin
7adac5d004 create occupancy stacks for all category values, not just top N values (#764) 2019-05-13 11:22:46 -07:00
Charlotte Weaver
d522cc8f91 Add clipping test to smoke tests (#757)
* Add clipping test to smoke tests

* devtools on in debug
2019-05-09 15:31:55 -07:00
Bruce Martin
846b8d15bd lodash cleanup (#747)
* add own range() function

* lodash cleanup

* remove redundant fill range implementations

* remove use of _.get

* sync test babel config with build

* update tests to match new range implementation
2019-05-06 20:28:32 -04:00
Charlotte Weaver
c12cb2424a release bugfix (#749)
* add __init__.py

* bump version
2019-05-06 10:16:36 -07:00
Bruce Martin
1471d6b214 release 0.9.0 (#746) 2019-05-04 08:41:56 -07:00
Bruce Martin
0aa0f641ab improve selection interaction with clip changes (#744)
* brush interactions with underlying dataframe updates improved

* improve comment

* reset selection state upon clip
2019-05-03 11:14:30 -07:00
Colin Megill
86bf64e793 avoid overflow on clip dialogue (#740) 2019-05-01 15:41:54 -04:00
Sidney Bell
a08e19bbd0 Clip continuous values based on percentile cutoffs (#672)
* Add numeric inputs for percentiles

* Define initial values for percentile cutoffs in world reducer

* add percentil to crossfilter dimensions

* worldEqUniverse now handles cloned worlds

* add Dataframe.mapColumns

* Wire up handlers for percentile inputs

* World reducer and stateManager know about continuousPercentileMin/Max

* Create world as universe clone (not pointer) to avoid clobbering vals

* Define basic actions for setting continuousPercentileMin/Max

* Under the hood, deal with percentiles between 0 and 1

* Move percentile inputs to visualization settings menu

* Fix padding for undo/redo buttons

* Trigger world rebuild from percentile actions

* BROKEN - pseudocode for clamping dataframe by percentiles upon world rebuild

* fix error handling on clip quantiles; start world clipping implementation

* more unclipped reorg

* rename crossfilter.percentile to quantile

* simplify schema access

* update continuous legend when scale changes

* update color cache when clip changes

* clip obs annotations and var data when clip quantile changes

* use own fromEntries

* fix tests

* stable non-finite float sort/search

* clarify comments

* fix syntax typo

* use new stand-alone clip

* clip expresssion data

* add select tests for non-finite scalars

* basic styles

* clip UI now requires explicit commit

* reset enable/disable accounts for clip percentiles

* better error messages

* fix bug in undo interaction with programatic min brush selection

* small refactoring

* support clipping of int data

* do not perform unnecessary summarizations

* improve caching of dataframe compiled columns

* add percentile precompute to Dataframe.summarize

* use Dataframe.summarize for clip percentiles

* remove obsolete quantile code from corssfilter

* histogram scale and label Y axis, add unclipped X range labels

* layout tweaks

* scatterplot now updates when clip changes

* improve comments

* remove debugging comment

* rework clip number entry validation for usability

* ui tweaks to histogram colors and layout

* enable undo/redo for clip user action

* refine UI on clip value entry

* api cleanup

* update confusing comment

* clarify purpose of isValidDigitKeyEvent

* fix misleading comment

* apply appropriate button-group classes; do not mix span and div

* variable name and comment changes suggested in PR review

* rename sort to sortArray; remove unused and dead code path

* naming changes suggested in PR review

* code review improvements for clarity

* more small changes from PR review

* lint fixes for PR review

* fix spelling error

* clarify that function performs in-place modification of world

* add comment to clarify intent of range operation

* fix bad indents in comments

* clean up __columnsAccessor comments and code

* improve comments around clipPredicate

* field name consistency

* improve comment on quantiles params
2019-04-30 16:20:10 -07:00
Charlotte Weaver
ea187f48e0 add scripts from cli (#680)
* add scripts from cli

* add warning when including scripts

* flake8 fixes

* confirm scripts injection
2019-04-22 12:30:57 -07:00
Justin Kiggins
1f735abe2b updates the roadmap & reorganizes the README (#712) 2019-04-18 13:10:03 -07:00
Colin Megill
b878b0f93c Gene typeahead stale state (#714)
* reimplementing suggest

* resolve stale state
2019-04-17 14:03:10 -04:00
Charlotte Weaver
d581a0d460 color by gene smoketest (#707)
* add test for color by gene expression

gene expression and metadata color by are handled differently

* error on console.error

not just on thrown errors
2019-04-11 17:06:36 -07:00
Bruce Martin
9044b8d85d fix color-by regression in toggle (#705)
* fix color-by regression in toggle

* fix incorrect field reference
2019-04-11 12:47:38 -07:00