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2021-01-06Added line to views.py to fixes error if the genotype file contains samples ↵zsloan
not listed in the DB
2021-01-06Changes to the way R/qtl deals with 4-way crosses so it will work with new ↵zsloan
HET3-ITP genotypes
2020-12-29Merge branch 'testing' of github.com:genenetwork/genenetwork2 into ↵zsloan
feature/pass_sample_vals_as_json
2020-12-29update tests for run gemmaAlexanderkabui
2020-12-28Fix issue that caused error bars to not work for bar chartzsloan
2020-12-25Added edit_data_change to block_by_attribute_value so it will update stats ↵zsloan
figures after using that tool
2020-12-18Added redirect_uri to the ORCID_AUTH_URL since it wasn't working due to ↵zsloan
missing this parameter
2020-12-18This should fix the Github login errorzsloan
2020-12-18Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-12-18Added Additive Effect when using LOCO with GEMMAzsloan
2020-12-18Changed show_corr_results.py to get sample names/values from the JSON ↵zsloan
sample_vals parameter
2020-12-18Changed display_mapping_results.py to get sample names and values from the ↵zsloan
JSON sample_vals parameter
2020-12-18Changed run_mapping.py to get sample names and values from JSON instead of a ↵zsloan
bunch of separate input parameters
2020-12-18Changed mapping_results.html to have a single sample_vals input instead of ↵zsloan
separate ones for every sample + added sample_vals to the list of inputs sent to the loading page
2020-12-18Added sample_vals to the list of mapping inputs that determines what is ↵zsloan
included in start_vars when trait page parameters are passed to the mapping loading page
2020-12-18Added sample_vals input element that is meant to contain JSON for all sample ↵zsloan
values (pulled from the sample table using DataTables API in show_trait.js)
2020-12-18Changed views.py to accept sample data for loading page and mapping as JSON ↵zsloan
instead of having separate form parameters for each sample + removed some commented out code/logging
2020-12-18Added function that fetches sample data and converts it to JSON to show_trait.jszsloan
2020-12-17Fixed some logic to work correctly with the changes to the way correlation ↵zsloan
filters work + changed correlation python code to include Mean (mean expression) for phenotype results
2020-12-17Added Mean (mean expression) column to phenotype correlation results tablezsloan
2020-12-17Fixed a couple logic issues and changed indentation in ↵zsloan
show_trait_calculate_correlations.html
2020-12-17Replaced Pheno with Publish for identifying dataset type in corr optionszsloan
2020-12-17Correlation Min Expr and Location filters display depending upon the ↵zsloan
selected target dataset now, instead of the trait's dataset
2020-12-17remove test for parse_gemma_output and modify run_gemma tests (#533)Alexander Kabui
2020-12-16Removed unused JS and fixed mapping covariate selection to work for both ↵zsloan
R/qtl and GEMMA
2020-12-16Made change to the way sample table width is calculated to account for ↵zsloan
sample name width
2020-12-16Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-12-16Removed ID/Sample/Value from Show/Hide Columns in trait page and only show ↵zsloan
the option if columns other than those exist
2020-12-16Set all attribute names to lower-case for sorting in order to keep order ↵zsloan
consistent
2020-12-16Replace zxcvbn async (#524)Alexander Kabui
* replace axcbn-async in templates * add zxcvbn-async.min.js in mechanical rob Co-authored-by: BonfaceKilz <bonfacemunyoki@gmail.com>
2020-12-16Replace shapiro wilk lib (#528)Alexander Kabui
* replace shapiro-wilk in templates * add shapiro-wilk.js to mechanical rob
2020-12-16Replace jquery libs(jquery cookie,jquery ui,jquery js) (#512)Alexander Kabui
* replace jquery-ui in templates * replace jquery-cookie library in templates * replace jquery.min.js in templates * add jquery-ui to mechanical rob * add jquery-cookie to mechanical rob * add jquery min js to mechanical rob Co-authored-by: BonfaceKilz <bonfacemunyoki@gmail.com>
2020-12-15Added additive effect to GEMMA results + removed an unused functionzsloan
2020-12-15Fixed typo in mapping results tablezsloan
2020-12-15Fixed mistake with the way lod score was being set for correlation resultszsloan
2020-12-15Resolved conflict from putting tool buttons in a separate templatezsloan
2020-12-15Fixed Reset button to also reset hidden rows + changed Hide No Value button ↵zsloan
to change its text when active
2020-12-15Changed the Hide No Value function to use DataTables APIzsloan
2020-12-15Changed string formatting to use preferable Python 3 syntax and converted ↵zsloan
LRS scores to LOD scores for the search results page
2020-12-15Changed LRS to LOD score for correlation page tablezsloan
2020-12-15Changed High P to Peak LOD and changed the width of the column somezsloan
2020-12-15Removed Index and Record from hideable columns in search result and ↵zsloan
correlation pages
2020-12-15Replace typeahead lib (#527)Alexander Kabui
* replace typeahead js in templates * add typeahead.bundle.js to mechanical rob * remove duplicate libs in snp_browser.html Co-authored-by: BonfaceKilz <bonfacemunyoki@gmail.com>
2020-12-15Replace twitter-post-fetcher (#526)Alexander Kabui
* replace twitter fetcher in templates * add twitter post fetcher to mechanical rob Co-authored-by: BonfaceKilz <bonfacemunyoki@gmail.com>
2020-12-15Merge branch 'testing' into replace-underscoreBonfaceKilz
2020-12-14Added a template for the tool bottons on the search result, correlation, and ↵zsloan
collection pages (since the buttons are the same and it's redundant currently)
2020-12-11Merge pull request #522 from zsloan/feature/default_scatterplot_tabzsloan
Feature/default scatterplot tab
2020-12-10Added an export for the Correlation Matrixzsloan
2020-12-10Replaced the Scroller import with the CDN one until we figure out why the ↵zsloan
new import doesn't work
2020-12-09Fixed another string formatting mistake with setting the bootstrap output filezsloan
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