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2018-01-12Add functions to help handle github loginMuriithi Frederick Muriuki
* Add functions to help with the github OAuth2 login process
2018-01-12Add elasticsearch_tools moduleMuriithi Frederick Muriuki
* Collect variables and functions for using the elasticsearch system in a separate module.
2018-01-12Add client_id and client_secret configurationsMuriithi Frederick Muriuki
* Provide the OAuth2 client_id and client_secret values in configuration variables.
2018-01-10Add template elements for OAuth loginMuriithi Frederick Muriuki
* Add html elements that will be used to prompt users to login with either GitHub or ORCID.
2018-01-10Add configuration variables for external servicesMuriithi Frederick Muriuki
* Add configuration variables for GitHub and ORCID which will be used by the system to allow users to login.
2018-01-04Merge pull request #270 from pjotrp/testingzsloan
Merge some older commits
2017-12-20Added submit_bnw even though it isn't working yet, just so views.py doesn't ↵zsloan
throw an error
2017-12-20Fixed issue that caused Mb ticks to get out of alignment for mapping figurezsloan
2017-12-20Fixed the way PLINK outputs phenotype files (though there's still some ↵zsloan
problem preventing it from working) Added some code related to new plotly probability plot, though it's commented out until it looks how I want it to Added some code for adding the BNW link to GN2, though it's not working yet Updated dataset menu structure JSON file
2017-12-20tools: find path for JS and gemma_wrapperPjotr Prins
2017-12-20Bring in some earlier work - mostly documentation and startup handlingPjotr Prins
2017-12-06Fixed drop-down group orderzsloan
2017-12-04Fixed drop-down scripts to more appropriately deal with BXD300 groups ↵zsloan
(though there's still a minor issue with a few datasets) Added some header data to mapping output file Fixed links in Network Group nodes/edges
2017-11-22Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2017-11-22Added option to export csv of full mapping resultszsloan
2017-11-21Merge pull request #258 from lyan6/masterzsloan
improved scatter plots
2017-11-17Fixed issue that caused GEMMA LOCO to not work on productionzsloan
2017-11-06Replaced Histogram and Bar Chart with Plotly version and added new Box Plot ↵zsloan
with Plotly GEMMA now has option to select genotypes Updated dataset select dropdowns to be ordered correctly Fixed dataset select dropdowns for correlations to not show confidential datasets Added Skewness and Kurtosis to Basic Statistics table Fixed Verify and RNA-seq buttons on trait page Temporarily hardcoded Reference page until we get it to link with database
2017-10-02Merge branch 'testing' of github.com:genenetwork/genenetwork2Lei Yan
2017-10-02save as svg button workLei Yan
2017-09-22Fixed issue that caused covariates to not work for certain data set groupszsloan
2017-09-22Fixed issue that caused LOCO to not work when remapping or using single ↵zsloan
chromosome view
2017-09-21LOCO should work with GEMMA (when BIMBAM available), though I still need to ↵zsloan
do more testing
2017-09-14Committing current progress towards implementing LOCO for GEMMA, not done yetzsloan
2017-09-13update Correlation Scatterplot formatLei Yan
2017-09-12Merge branch 'testing' of github.com:genenetwork/genenetwork2Lei Yan
2017-09-12change corr_scatterplot precision formatLei Yan
2017-09-07Updated show trait page to correctly show GEMMA options for certain data setszsloan
2017-09-07Added the script to convert bimbam to kinship matriceszsloan
2017-09-05Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2017-09-05Added file converting genofiles to bimbamzsloan
2017-09-04gemma-wrapper: find binary in profilePjotr Prins
2017-08-29Mostly changes related to getting gemma working with covariates and BIMBAM ↵zsloan
file format Other changes include: - Fixing links in the network graph - Changing button colors on show trait page - Changing color scheme for heatmap - Making rows highlight in yellow when clicked on - Some changes to table appearance (like giving gene global search a horizontal scroll)
2017-08-23Update corr scatterplotLei Yan
2017-08-03remove bracketsLei Yan
2017-08-02Remove duplicate codesLei Yan
2017-08-02Merge branch 'testing' of github.com:genenetwork/genenetwork2Lei Yan
2017-08-02Update Correlation Scatterplot parametersLei Yan
2017-07-06Merge branch 'testing' into developmentdevelopmentzsloan
2017-07-06Improved table appearance for global searcheszsloan
Scatterplot Matrix works again Added the first few changes to get covariates working (not done yet)
2017-07-03Update Statistic table in Correlation ScatterplotLei Yan
2017-06-30Fix Correlation Scatterplot axis formatLei Yan
2017-06-29Update Correlation ScatterplotLei Yan
2017-06-28Update Correlation ScatterplotLei Yan
2017-06-26Merge branch 'master' of github.com:genenetwork/genenetwork2Lei Yan
2017-06-26Fix Correlation Scatterplot thingsLei Yan
2017-06-14Changed color scale for heatmap to blue <-> white <-> redzsloan
Removed an extraneous character in the gsearch_pheno html
2017-06-14Removed scatterplot matrix option since it isn't working correctly right nowzsloan
Removed Download as PNG option for Probability Plot since it also isn't working yet
2017-06-14Added descriptions for GEMMA and PLINK as well as a warning about the issue ↵zsloan
with GEMMA where you can't run it simultaneously on two traits from the same group
2017-06-13Fixed trait links in network graph nodeszsloan
Added warning notifying users that file upload option in the submit_trait page doesn't work yet