| Age | Commit message (Expand) | Author |
|---|---|---|
| 2013-07-18 | Added Amelie's rat data genotypes...Got human mapping mostly working Fixed dataset dropdown menus | Zachary Sloan |
| 2013-07-18 | Merge branch 'master' of https://github.com/zsloan/genenetwork...Conflicts: wqflask/base/webqtlConfigLocal.py wqflask/maintenance/gen_select_dataset.py wqflask/wqflask/static/new/javascript/dataset_menu_structure.json | Zachary Sloan |
| 2013-07-18 | Added to installation notes...Removed webqtlConfigLocal file containing passwords Updated main page dropdown menus (dataset_menu_structure.json) | Zachary Sloan |
| 2013-07-17 | Fixed gen_select_dataset.py...Appended redis installation info to notes | Zachary Sloan |
| 2013-07-16 | Wrote code that can get a dataset's type for every single GN...dataset; previously we could not view traits in datasets that were not in the DBType table in the database | Zachary Sloan |
| 2013-07-12 | Rewrote code related to getting the tissue correlation column to display...Created new files for mrna assay tissue data and commonly used db query related functions | Lei Yan |
| 2013-07-03 | Merge /home/zas1024/gene | Lei Yan |
| 2013-06-27 | Created a group manager page where user administrators can create...groups of datasets to give/add read privileges to | Zachary Sloan |
| 2013-06-26 | Moved code creating DataSets object to a function in dataset.py...Added caching to creating DataSets object | Zachary Sloan |
| 2013-06-26 | Got code that creates DataSets object running...Fixed one genofile that had extra quotation marks in the comments that caused an error Defaults mb_graph_interval to 1 for species without chromosome lengths in megabases | Zachary Sloan |
| 2013-06-25 | Added DataSets class to dataset.py that will be used to create list of...confidential datasets | Zachary Sloan |
| 2013-06-25 | Merge git://github.com/zsloan/genenetwork into flask | Lei Yan |
| 2013-06-21 | Fixed bug where cursor was still being used in query | Zachary Sloan |
| 2013-06-20 | Merge branch 'flask' of git://github.com/leiyan/GeneNetwork2-Python into flask...Conflicts: wqflask/requirements.txt wqflask/wqflask/correlation/show_corr_results.py | Zachary Sloan |
| 2013-06-19 | Moved the normalize_values function to separate file corr_result_helpers.py...Added docstring test to normalize_values Number of overlapping samples column now displays correctly in the correlation results page | Lei Yan |
| 2013-06-19 | Fixed issue where the Mean Expr, Max LRS, and Max LRS Location columns...in the correlation page weren't displaying | Lei Yan |
| 2013-06-19 | Merge branch 'flask' of git://github.com/zsloan/genenetwork into flask...Conflicts: wqflask/base/data_set.py | Lei Yan |
| 2013-06-19 | Changed QTL parameter name to "get_qtl_info" on trait.py and...other places it's called, like search_results.py Added other trait info fields to correlation results page | Lei Yan |
| 2013-06-19 | Merge branch 'flask' of git://github.com/leiyan/GeneNetwork2-Python into flask...Conflicts: wqflask/base/data_set.py wqflask/wqflask/views.py Fixed a couple conflicts to merge Lei's code related to the correlation page | Zachary Sloan |
| 2013-06-13 | Merge /home/sam/gene into flask...Conflicts: wqflask/wqflask/templates/index_page.html Merging the code on Sam's branch onto my own | Zachary Sloan |
| 2013-06-13 | Fixed issue where too much memory was used as a result of creating a...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 | Lei Yan |
| 2013-06-12 | Fixed a couple issues with the template that caused the...regular search results and show trait page to not display | Zachary Sloan |
| 2013-06-11 | Put trait info for correlation results page into a dictionary instead...of storing list of GeneralTrait objects Added print statements to track memory usage | Lei Yan |
| 2013-05-31 | Fixed the location column for the quick search page...Began writing some jquery to automatically open the first tab within each species tab on the quick search page (not done yet) | Zachary Sloan |
| 2013-05-30 | Rewrote some code in get_trait_info in dataset.py...Added spearman correlation to show_corr_results and template | Lei Yan |
| 2013-05-28 | Have correlation values appearing in a table in the template...Use scipy to calculate pearson correlation instead of old GN code | Lei Yan |
| 2013-05-23 | Worked on rewriting the function in data_set.py that gets the sample...values for each trait | Lei Yan |
| 2013-05-23 | Changed the way the query that gets sample ids is generated | Lei Yan |
| 2013-05-23 | Now calculates correlation values for traits, but not yet in template | Lei Yan |
| 2013-05-09 | Just added some print statements so I can show matrix/vector...shapes to Tony | Zachary Sloan |
| 2013-05-08 | Worked on correlation page...Wrote function in dataset.py that gets all the traits in a dataset and their sample values | Lei Yan |
| 2013-04-17 | Created file with pickled SNPIterator (from input.py) data...for HLC datasets Still need to read in file | Zachary Sloan |
| 2013-04-09 | Nick's code works fine with human data...Added option to limit results based on lod score (which also changes the y-axis of the plot) | Zachary Sloan |
| 2013-04-05 | Made changes to get pylmm code working with HMDP datasets | Zachary Sloan |
| 2013-04-02 | Committing before splitting code that runs pylmm with plink files...and code that runs it with json | Zachary Sloan |
| 2013-04-02 | pylmm code is running for human data (plink .bed genotype files) | Zachary Sloan |
| 2013-03-19 | Searches work for the full access human datasets with mRNA assay...searches, and the trait page can be loaded Need to get marker regression page working with human data now | Zachary Sloan |
| 2013-03-12 | Added the script generating probesetfreeze data matrix files...The script was created to regenerate a bad file for Evan | Zachary Sloan |
| 2013-03-12 | Got cashing working with pickle | Zachary Sloan |
| 2013-03-07 | Progress bar is now completely working...Still need to figure out the problem that occurred with negative p-values after I refactored the LMM code | Zachary Sloan |
| 2013-03-02 | Created generate_probesetfreeze_file to create the..."probesetfreeze data matrix" file corresponding with the muscle dataset Evan was having trouble with | Zachary Sloan |
| 2013-02-22 | Added some to notes | Zachary Sloan |
| 2013-02-14 | Have marker regression results displaying as a scatterplot (just the points)...using d3.js | Zachary Sloan |
| 2013-02-13 | Fixed some bugs related to getting the marker regression page working...with Nick's code | Zachary Sloan |
| 2013-02-12 | Edited marker_regression.py and data_set.py to store the p-values...and their corresponding markers to be used in the table of qtl results and other figures | Zachary Sloan |
| 2013-02-07 | Added code to marker_regression.py that creates the numpy arrays to...pass to Nick's code and changed the prep_data.py code to operate on a list of phenotype values instead of a textfile with the values delimited | Zachary Sloan |
| 2013-01-31 | Changed fd to kw in search_results.py, commented out some lines...related to fd | Zachary Sloan |
| 2013-01-25 | Fixed a few bugs while trying to get the code running on the new server | Zachary Sloan |
| 2013-01-18 | Renamed CorrelationPage.py to show_corr_results.py...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 | Zachary Sloan |
| 2013-01-08 | Created IndChromosome class in species.py and wrote functions for...chromosome-related attributes Began to try and pass qtlreaper results as js_data to use when drawing graphs | Zachary Sloan |
 |
index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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