Commit Graph

871 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
Charlotte Weaver
28c4d28308 extract prepare from main install (#887)
* extract prepare from main install

* add requirements-prepare to manifest
2019-08-21 14:26:01 -07:00
Charlotte Weaver
b8c05763fe sparse tests (#894) 2019-08-21 14:09:36 -07:00
Charlotte Weaver
613f1a911f pin matplotlib dependency (#885)
reordering packages does not work from dist install
2019-08-14 14:21:07 -07:00
Severiano Badajoz
bbb521537b create single-click Heroku hosting and documenation (#834)
* add deploy button

* Fix info

* Create heroku.yml

* Remove unnecessary files

* add buildpack

* Add container stack

* Remove comment

* Remove comment

* fix stack name?

* Move run to heroku.yml with port var

* Add dataset env var

* Add dataset env var

* Revert "Remove unnecessary files"

This reverts commit b2cb34dccb.

* move Dockerfile

* create readme

* add back preexisting Dockerfile

* remove button

* Add quick start and caveats

* add what and why section

* remove README

* add deploy button

* Fix info

* Create heroku.yml

* add buildpack

* Add container stack

* Remove comment

* Remove comment

* fix stack name?

* Move run to heroku.yml with port var

* Add dataset env var

* Add dataset env var

* move Dockerfile

* create readme

* add back preexisting Dockerfile

* remove button

* Add quick start and caveats

* add what and why section

* remove README

* wording fix

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* fix link

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* replace github links with S3 buckets

* small fixes

* grammar and spelling changes

* add hibernation caveat

* more spelling

* revise what is heroku

* rewording

* rename header

* revise caveats

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* various changes

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Charlotte Weaver <charlottesweaver@gmail.com>

* Update experiments/heroku/README.md

Co-Authored-By: Sidney Bell <sidneymbell@users.noreply.github.com>

* Update experiments/heroku/README.md

Co-Authored-By: Sidney Bell <sidneymbell@users.noreply.github.com>

* revisions/additions
2019-08-14 13:16:49 -07:00
Charlotte Weaver
79a503e436 fix bad matplotlib library by installing scanpy first (#881) 2019-08-12 16:42:26 -07:00
Sidney Bell
69e69f4dae Add logo and favicon to docs (#880) 2019-08-12 16:03:41 -07:00
Sidney Bell
fcaa30d7cc readme updates (#878)
* Add Lia to core team in readme

* Update readme

* Add logo to readme
2019-08-12 12:56:26 -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
Justin Kiggins
57b1c3cbb4 put badges on one line in README (#862) 2019-07-31 16:01:09 -07:00
Marcio von Muhlen
40c533a45b Update README.md (#856)
Full URLs for roadmap, contributor guide to fix 404s on Pypy.
2019-07-26 13:35:46 -07:00
Severiano Badajoz
9eb8185e82 add badges to readme (#857)
* prettier

* add pypi and commit badges

* formatting

* revert DOI badge

* Update README.md

Co-Authored-By: Justin Kiggins <justin.kiggins@chanzuckerberg.com>
2019-07-25 16:52:38 -07:00
Charlotte Weaver
6a86883c2d Remove stray quote (#854) 2019-07-19 12:40:54 -07:00
Colin Megill
d16a69e158 bump version to 0.11.0 (#850)
* bump version to 0.11.0

* manually fix version number
0.11.0
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
Charlotte Weaver
3d98797d8c Installer (#840) 2019-07-12 12:29:22 -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
Sidney Bell
98b07b1284 Add code of conduct; move contributing guidelines to CONTRIBUTING.md (#842) 2019-07-11 10:09:35 -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
Charlotte Weaver
722a91f1d2 remove options widget + launch on file selection (#839)
* remove options widget + launch on file selection

* extend drop area width
2019-07-09 10:46:13 -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
Charlotte Weaver
8afb22a017 GUI UI Elements (#816) 2019-06-27 17:30:57 -07:00
Charlotte Weaver
5effe4bbbb removed --diffexp cli param (#826) 2019-06-26 14:46:58 -07:00
Justin Kiggins
df1109e920 updating roadmap (#825) 2019-06-26 09:47:37 -07:00
Sidney Bell
2df93d6d94 Add prepare example and update demo datasets (#810)
* Update example datasets w/ pbmc3k and tabula muris

* Add `prepare` overview and example

* Add S3 data links

* Incorporate PR feedback & copyedits

* Switch to letter pointers

* unix line endings

* path
2019-06-13 16:55:09 -07:00
Charlotte Weaver
d5deb1579f [EASY] fix max-category-items (#813)
* fix max-category-items

* match default for max category items

fe had 1000, be had 100
2019-06-13 15:45:43 -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
Charlotte Weaver
afeddad343 windows fixes (#767) 2019-06-11 11:41:27 -07:00
Charlotte Weaver
0f17b84dc1 Add reload back in (#808) 2019-06-06 13:49:15 -07:00
Charlotte Weaver
3edb87d125 gui multiprocess - experimental feature (#780) 2019-06-06 10:52:05 -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
Justin Kiggins
3152de4b7f fixes URL to getting started (#801) 2019-05-31 19:34:51 -07:00
Bruce Martin
ca9a6796d8 release 0.10.1 (#797) 0.10.1 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
Justin Kiggins
ffd7f0db49 adds zenodo badge (#795) 2019-05-30 10:23:49 -07:00
Bruce Martin
c6252825f3 release 0.10.0 (#794) 0.10.0 2019-05-29 16:55:43 -07:00
Bruce Martin
4b96b3a635 fix incompatibility of flask reload and port searching (#793)
* WIP

* add --developer; fix incompatibility of --port and --debug

* put REST tests on separate ports

* PR review
2019-05-29 16:38:57 -07:00
Colin Megill
862d8feb5e x (#792) 2019-05-29 12:23:30 -04:00