Commit Graph
23 Commits
Author SHA1 Message Date
Bruce Martin 6b33315cbe Dataframe (#576)
* initial dataframe commit

* initial dataframe port of core app

* rename variables for clarity

* remove unused import

* comment out unused code

* fix array handling bug in crossfilter dimension creation

* allow creation of empty dataframes

* handle non-existent columns

* handle non-existent columns

* revise tests for new dataframe

* comments for clarity

* comments for clarity

* generate bulk add placeholder with real gene names

* fix bug in gene name adding

* more dataframe unit tests

* fix bug - subset from current world, not universe

* put cut and pasted code into a single function

* improve caching of crossfilter

* remove cascading update bug from graph

* more performance work

* improve state handling for scatterplot

* performance optimization of critical path

* add column summarization

* dataframe utils

* add callOnceLazy

* fix tests

* minor updates found during review

* fix misspelling

* remove RESTv02 from function names

* comment cleanup

* cut/icut col parameter defaults to null

* break up large test

* improve tests and comments on dataframe at/has functions
2019-02-22 11:31:34 -08:00
Colin Megill 08ea7d5137 Better input validation (#580) 2019-02-05 10:44:59 -05:00
Colin Megill 2df7161cd8 Bulk add genes (#567)
* bulk add

* cleanup
2019-01-29 16:26:09 -05:00
Bruce Martin b90447c387 binary wire format with flatbuffers (#509)
* first flatbuffer schema

* do not lint auto-generated files

* add flatbuffers package

* add flatbuffer module

* wire up /data/X/T route

* use flatbuffers for matrix data fetc

* clarity and comments

* add flatbuffer layout route

* clean up obsolete code

* fix tests

* move flake8 config to setup.cfg

* add comments

* lint

* rework layout routes for fbs

* add more type support to fbs

* lint

* add flatbuffer support for annotations

* function name improvements

* fix botched merge with master

* remove unused import

* route cleanup for flatbuffers

* rename function for clarity

* add missing globals to Jest tests

* fix client JS tests

* fix routes for Python tests

* comments for clarity

* non-finite floating point hardening

* more non-finite number handling

* lint

* fix tests for summarizeAnnotations

* harden diffexp calculation against FP errors

* cleanup unused code

* lint

* add encoding tests for flatbuffers

* application type specified as strings

* fix spelling error

* improve variable names

* add note about documentation gap

* rename FBS DataFrame to Matrix
2019-01-09 14:26:05 -08:00
Colin Megill 42e25a1a1f Async on long running operations (#543)
* compute differential button

* add user gene loading state to reducer

* create input group, consume usergeneloading

* add loading state
2019-01-07 16:45:47 -05:00
Colin Megill b0daeb3a9b disable cell set buttons (#538) 2019-01-03 20:05:09 -05:00
Bruce Martin af0d1f6fb2 issue #480 workaround (#484)
* only load annotation var names

* remove incorrect usage of var annotation data

* temporary workaround for issue #480

* lint

* issue warnings only once per item
2018-11-29 16:33:21 -08:00
Colin Megill 00b9a8fa72 Fuzzy search on genes (#473)
* proof of concept blueprint typeahead

* poc with fuzzysearch lib

* typeahead adds gene on enter

* add gene on menu click

* typeahead clears correctly

* cleanup
2018-11-28 09:50:02 -08:00
Bruce Martin 00a68276a2 diffexp performance & UX improvements (#431)
* new diffexp REST API spec

* new diffexp REST API; faster diffexp and dataframe slicing

* first draft of fast diffexp

* convert variance calculation to two-pass method

* lint

* update front-end use of API

* fix typo in spec

* disable content compression

* catch index filter format errors

* clean up of dead code

* resolve PR review comments
2018-11-14 12:51:24 -08:00
Bruce Martin 9d7754e31e Improve front-end HTTP error handling (#397)
* UI for HTTP error handing in diffexp route

* HTTP error handling for other routes

* clean up toasters
2018-10-30 19:02:11 -07:00
Colin Megill ed66ae6e4a tooltips, copy, scatterplot tray (#383)
* tooltips, copy, scatterplot tray

* reset interface

* copy
2018-10-26 19:21:39 -04:00
Colin Megill 7aa390b5a1 left sidebar improvements (#368)
* left sidebar improvements

* lint
2018-10-24 10:21:18 -04:00
Colin Megill df671192be Begin integrating blueprint (#359)
* toast test

* modify webpack build to allow for global CSS; use CSS modules to scope component styling

* remove heatmap

* add label to index resets

* swapping out buttons for blueprint

* adding constants to globals

* swapping out blueprint buttons

* title position, sidebar improvements

* sidebar styles

* adding toasts for validation errors

* zebra section trial

* integrating blueprint, switching buttons over, breaking out scatter

* clean up console
2018-10-22 15:46:37 -04:00
Bruce Martin f9f43c42c0 more lint - components (#336)
* more lint

* fix typo introduced in delinting

* more lint

* remove dead code

* lint fixes

* lint
2018-10-17 07:17:51 -07:00
Colin Megill 952578680a Remove heatmap, add diffexp info to histograms (#339)
* Create Release_Validation_Recipe.md

* compose middle ware for redux devtools

* update package.json and lock

* remove heatmap, add to left side bar

* redux devtools extension
2018-10-16 16:29:20 -07:00
Bruce Martin 6b0aafd27c package dependency cleanup (#330)
* update npm packages.  babel 7, redux 4, etc

* remove obsolete babel config file

* use correct icons
2018-10-15 17:36:13 -07:00
Colin Megill 8e08534d42 user defined gene 2018-10-15 11:20:52 -07:00
Colin Megill 2b77f8146b namespacing 2018-10-15 11:20:52 -07:00
Colin Megill fff331e1f0 stub additional validation for gene name 2018-10-15 11:20:52 -07:00
Colin Megill 8d07b400be adding and removing user defined genes 2018-10-15 11:20:52 -07:00
Colin Megill 1cf9fc76b0 break out differential genes from user defined 2018-10-15 11:20:52 -07:00
Colin Megill 693dc7be12 switch to roboto condensed for space 2018-10-15 11:20:52 -07:00
Colin Megill 2c74291ee9 add gene expression section to left sidebar 2018-10-15 11:20:52 -07:00