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13246cb6d1f9798f5641bc7c4f61ba9331bff4e3
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98 Commits

Author SHA1 Message Date
Bruce Martin
13246cb6d1 add more datasets (#1618) 
* add more datasets

* add more about links
 2020-07-10 14:55:55 -07:00
Bruce Martin
dcbee43b88 add kampmann datasets (#1617) 
* add kampmann datasets

* build for production
 2020-07-10 05:12:21 -07:00
Matt Weiden
152c07a28e Change default branch from 'master' to 'main' (#1589) 
The default branch has been changed. This PR cleans up references to
`master` and fixes links that would otherwise be broken.

For more background see the following references:
* https://www.independent.co.uk/life-style/gadgets-and-tech/news/github-master-slave-slavery-whitelist-language-inclusive-a9568576.html
* https://tools.ietf.org/id/draft-knodel-terminology-00.html
 2020-06-25 14:04:30 -07:00
mattcai
d6c606b72e minor typo fix (#1553) 2020-06-10 12:57:27 -07:00
Bruce Martin
2992d17c1d add more detasets to hosted site (#1481) 
* add more detasets to hosted site

* fix build
 2020-05-19 14:24:27 -07:00
Matt Weiden
546e272a60 Add user-defined category-label colors (#1402) 
* Add user-defined category-label colors

Fixes https://github.com/chanzuckerberg/cellxgene/issues/1152

As described in https://github.com/chanzuckerberg/cellxgene/issues/1307

* Respond to feedback from @bkmartinjr in nodejs

* Respond to feedback from @bkmartinjr in python

* Add tests to the server module

* Autoformat python, run linter

* Make colors_get error handling specific

* Respond to feedback from @bkmartinjr

* Respond to feedback from @bkmartinjr

* Fix whitespace

* Fix python lint errrors

* Update documentation

* Add --disable-user-colors option to launch and cxgtool.py

* Fix python formatting

* Rename '--disable-user-colors' to '--disable-custom-colors'
 2020-04-26 22:52:57 -07:00
Bruce Martin
3c191c3f93 add dsuid 25 (#1429) 2020-04-26 07:53:49 -07:00
Bruce Martin
9b12b729c9 more data (#1419) 2020-04-21 18:22:52 -07:00
Bruce Martin
3b341a7191 add hcl dataset (#1366) 2020-04-07 07:51:32 -07:00
Bruce Martin
0d9f24115c cziscience landing page (#1347) 
* fix dead link in launch page

* first cut at landing page

* wording changes

* add additional refinements

* fixes from PR review
 2020-04-03 16:30:02 -07:00
Bruce Martin
1e8d89f8f2 refinements for 0.15 (#1226) 2020-03-13 16:30:47 -07:00
Bruce Martin
9bc83fdd02 update contributor process recommendations (#1213) 
* update contrib process recommendations

* fix typos

* clarification

* fix build instructions

* updates suggested by Matt

* fix dead link
 2020-03-13 11:41:30 -07:00
Sidney Bell
9089fc98f2 annotations cli updates (#1190) 
* Switch logic from `--annotations` to `--disable-annotations

* Rename `--annotations-file` --> `--annotations-input-file` and remove `experimental`

* update docs

* update makefile

* update tests

* Disable annotations on standard client smoke test

* Update docs/posts/annotations.md

Co-Authored-By: Matt Weiden <538456+mweiden@users.noreply.github.com>

* Update docs/posts/annotations.md

* Renaming

* Docs

* Update tests

* Pesky typo -_-

Co-authored-by: Matt Weiden <538456+mweiden@users.noreply.github.com>
 2020-03-11 11:57:52 -07:00
Severiano Badajoz
cc890fe391 fix url launching on Heroku deployments (#1196) 
* fix improper branch link

* set app to use dataset link

* temp repo change

* revert to master

* add options var

* tweak option order

* remove options config arg
 2020-03-04 13:05:11 -08:00
Sidney Bell
2832393f40 Make diffexp docs more specific (#1083) 
* Update diffexp docs w/ more explicit assumptions, etc.

* Minor edits

* Formatting and cross-checking with `diffexp.py`
 2020-01-16 15:44:10 -08:00
Sidney Bell
124254d5ed typo 2020-01-13 10:55:53 -08:00
Sidney Bell
ec79995be8 Reorganize annotations docs to emphasize hosted vs single-user modes (#1067) 2019-12-03 17:02:35 -08:00
Sidney Bell
517e0f3826 [docs] Fix annotations command 2019-12-02 09:26:07 -08:00
Sidney Bell
1ed68261d4 Add sceasy package to docs 2019-11-27 08:49:21 -08:00
Sidney Bell
bb3032ea2f Update getting started docs w/ direct url launch 2019-11-26 12:57:50 -08:00
Sidney Bell
5e471349e7 Cleanup docs files 2019-11-26 08:44:23 -08:00
Sidney Bell
0aee4b89e0 Fix docs font 2019-11-26 08:43:57 -08:00
Sidney Bell
575f71aaee Fix base url 2019-11-22 18:17:43 -08:00
Sidney Bell
298ded6e2d Add site files 2019-11-22 14:59:40 -08:00
Sidney Bell
85c1b6957e Final annotations notes 2019-11-22 14:53:35 -08:00
Sidney Bell
2f99b317a2 Update annotations docs 2019-11-22 13:57:50 -08:00
Sidney Bell
8535664e9c Typo 2019-11-22 11:26:55 -08:00
Sidney Bell
5ed9f5126b Switch demo datasets to launch directly from URL 2019-11-22 11:26:51 -08:00
Sidney Bell
621b88bff4 Simplify demo data download 2019-11-21 18:51:30 -08:00
Sidney Bell
ecedf666c7 Bold current page in nav 2019-11-21 18:51:13 -08:00
Sidney Bell
afff2ceec7 Update logo 2019-11-21 18:50:55 -08:00
Sidney Bell
be9a415a4a Typo 2019-11-21 17:02:59 -08:00
Sidney Bell
0295041972 Fix typos, etc in prepare 2019-11-21 17:02:50 -08:00
Sidney Bell
8fe7ee75e8 Minor text edits to launch 2019-11-21 17:02:30 -08:00
Sidney Bell
a3d96aae0a Minor text edits to hosted (i.e., typos) 2019-11-21 17:02:01 -08:00
Sidney Bell
d5d56d89d1 Change text color 2019-11-21 17:01:33 -08:00
Sidney Bell
a6a2841961 Update gifs in gallery (thank you @liaprins-czi !) 2019-11-21 17:01:24 -08:00
bkmartinjr
79e534e397 additional caveats/warnings for hosting 2019-11-20 10:40:00 -08:00
bkmartinjr
f4919340e9 merge 2019-11-20 10:33:17 -08:00
bkmartinjr
976f9d9ff8 add hosting notes 2019-11-20 10:28:40 -08:00
Severiano Badajoz
a5d343aaa4 add list of wild hosted cellxgene instances 2019-11-12 15:39:04 -08:00
bkmartinjr
54d144bb75 add build dependencies for igraph and louvain 2019-11-12 07:56:03 -08:00
bkmartinjr
bf3bf58d6e improve launch docs 2019-11-09 13:03:47 -08:00
bkmartinjr
611c8b98b1 add --backed info to troubleshooting 2019-11-09 12:59:33 -08:00
bkmartinjr
d08506ae12 improve install docs 2019-11-09 12:49:22 -08:00
Sidney Bell
9c8c28e1cb Overhaul the whole documentation site 2019-11-07 17:03:33 -08:00
Bruce Martin
711f3b7048 Add support for anndata backed mode (#943) 
* initial cut at backed mode

* make flask multithreading conditional on debug flag

* update X access to support backed mode

* lint

* improve help message for backed mode

* fix tests

* add MatrixProxy to normalize supported matrix types

* add FAQ entry for --backed

* remove use of matrix.T

* clean up

* add ability to disable diffexp from CLI; add hueristic to detect likely slow diffexp calculation, and warn user

* fix tests

* do not print diffexp speed warning if diffexp is disabled

* tweak wording of diffexp speed messages

* add FAQ entry on --disable-diffexp

* revise heuristic for warning about slow diffexp

* use quick tooltip delay on diffexp button
 2019-10-08 11:16:07 -07:00
Bruce Martin
de6721b682 fix broken link (#978) 2019-10-07 11:08:18 -07:00
Bruce Martin
922c375333 Rename "layout" to "embedding" in the UI (#921) 
* rename "layout" to "embedding" in the UI

* docs changes for layout

* fix typo in data docs

* new help text, per PR review
 2019-09-16 15:34:14 -07:00
Bruce Martin
20317fd08f Add URL data locators to launch sub-command (#920) 
* initial commit of URL support for launch

* lint

* modify tests to use new data locator

* add locator unit tests

* fix typo in faq

* more lint

* update faq per PR review
 2019-09-15 09:01:53 -07:00