genenetwork2 - GeneNetwork (2nd generation)

Age	Commit message (Collapse)	Author
2015-07-09	Some phenotype searches were throwing an error due to an assert statement in ↵	zsloan
	trait.py. Since I couldn't find the purpose of the assert statement I removed it.
2015-06-29	Merge pull request #72 from lomereiter/issue69	zsloan
	Fixes #69
2015-06-22	fixed a few potential security issues	Artem Tarasov

2015-06-18	fix all_samples_ordered	Artem Tarasov
	move duplicated code into a method, handle the case of missing f1/f12 correctly
2015-05-22	Fixed issue where correlation didn't work for human traits (and probably ↵	zsloan
	some others)
2015-05-12	Fix #35	Artem Tarasov
	* 'aliases' and 'location' are shown only where relevant * descriptions for phenotype datasets are provided at the top
2015-04-10	Added git large file system (the .gitattributes files) and fixed an issue ↵	zsloan
	where rat trait pages wouldn't work
2014-12-12	Added a additive effect column to search result and collection tables	Zachary Sloan
	Fixed the header so that it looks fine when resizing
2014-10-02	Fixed an error when there's no locus for mRNA expression traits	Zachary Sloan

2014-08-21	Committer: Lei Yan <lei@penguin.uthsc.edu>	Lei Yan
	On branch master
2014-06-25	Added Karl's correlation matrix code	Zachary Sloan
	Improved the "scatterplot matrix" feature on the trait page so that it matches the chosen trait against every selected trait
2014-06-06	Implimented Karl Broman's lodchart code for the interval mapping function.	Zachary Sloan
	Suggestive/significant bars and additive effect curve added
2013-11-27	Clicking a trait in "color by trait" now gets all of its sample values	Zachary Sloan
	that will be used to color the bar graph
2013-11-26	Made some progress towards getting the traits inside a collection to display ↵	Zachary Sloan
	on hover
2013-11-25	Got the interval mapping results into a table	Zachary Sloan

2013-11-01	Merge /home/sam/gene	Zachary Sloan

2013-10-30	More work on collections	Sam

2013-10-25	Began working on color coding bar chart by extra attributes	Zachary Sloan

2013-09-13	Merge https://github.com/zsloan/genenetwork	Lei Yan
	Resolved conflicts: wqflask/base/trait.py wqflask/wqflask/correlation/correlationFunction.py wqflask/wqflask/correlation/correlation_function.py wqflask/wqflask/correlation/correlation_functions.py wqflask/wqflask/correlation/show_corr_results.py
2013-08-07	Fixed things with the dataset dropdowns and mRNA datasets	Zachary Sloan
	Improved the templates for a couple pages related to changing user password, etc
2013-07-18	Added Amelie's rat data genotypes	Zachary Sloan
	Got human mapping mostly working Fixed dataset dropdown menus
2013-07-16	Wrote code that can get a dataset's type for every single GN	Zachary Sloan
	dataset; previously we could not view traits in datasets that were not in the DBType table in the database
2013-06-25	Merge git://github.com/zsloan/genenetwork into flask	Lei Yan

2013-06-20	Merge branch 'flask' of git://github.com/leiyan/GeneNetwork2-Python into flask	Zachary Sloan
	Conflicts: wqflask/requirements.txt wqflask/wqflask/correlation/show_corr_results.py
2013-06-19	Moved the normalize_values function to separate file corr_result_helpers.py	Lei Yan
	Added docstring test to normalize_values Number of overlapping samples column now displays correctly in the correlation results page
2013-06-19	Fixed issue where the Mean Expr, Max LRS, and Max LRS Location columns	Lei Yan
	in the correlation page weren't displaying
2013-06-19	Merge branch 'flask' of git://github.com/zsloan/genenetwork into flask	Lei Yan
	Conflicts: wqflask/base/data_set.py
2013-06-19	Changed QTL parameter name to "get_qtl_info" on trait.py and	Lei Yan
	other places it's called, like search_results.py Added other trait info fields to correlation results page
2013-06-19	Merge branch 'flask' of git://github.com/leiyan/GeneNetwork2-Python into flask	Zachary Sloan
	Conflicts: wqflask/base/data_set.py wqflask/wqflask/views.py Fixed a couple conflicts to merge Lei's code related to the correlation page
2013-06-13	Fixed issue where too much memory was used as a result of creating a	Lei Yan
	dataset object for each trait in the correlation results Added new fields/columns for each trait in the correlation result table (max LRS, max LRS location, mean expression) Fixed error if trait doesn't have these fields
2013-06-11	Put trait info for correlation results page into a dictionary instead	Lei Yan
	of storing list of GeneralTrait objects Added print statements to track memory usage
2013-05-31	Fixed the location column for the quick search page	Zachary Sloan
	Began writing some jquery to automatically open the first tab within each species tab on the quick search page (not done yet)
2013-05-30	Rewrote some code in get_trait_info in dataset.py	Lei Yan
	Added spearman correlation to show_corr_results and template
2013-05-08	Worked on correlation page	Lei Yan
	Wrote function in dataset.py that gets all the traits in a dataset and their sample values
2013-01-18	Renamed CorrelationPage.py to show_corr_results.py	Zachary Sloan
	Worked with correlation code; got to the code that begins to do the actual correlations Created a function "get_dataset_and_trait" in the new file "helper_functions.py" because the code initializing the dataset and trait objects was repeated in multiple places
2013-01-03	Created template for marek regression page and made the compute button direct	Zachary Sloan
	to it added asbolute_import in data_set.py and trait.py Made several minor changes and deleted commented out code in trait.py
2012-12-07	Got basic statistics in show_trait to display the correct number	Zachary Sloan
	of samples for each group Got show_trait page to display for genotype traits
2012-12-06	Made many small changes to show_trait/data_set/search_results/trait to	Zachary Sloan
	remove use of the formData object and cursor
2012-12-05	Renamed webqtlTrait.py to trait.py	Zachary Sloan
	Renamed webqtlTrait class to GeneralTrait Began process of removing fd from show_trait.py Created DatasetGroup object in data_set.py (this may end up becoming its own file later if it becomes big enough)