| Age | Commit message (Expand) | Author |
|---|---|---|
| 2013-04-17 | Fixed small issue with the divide_into_chunks function...that caused one too many chunks to be created | Zachary Sloan |
| 2013-04-16 | Wrote functions that divide a list into a specified number of chunks...(to be used on the list of snps for the LMM code) | Zachary Sloan |
| 2013-04-16 | Checking in before making some changes | Zachary Sloan |
| 2013-04-16 | Put most of the code calculating human association statistics in...lmm.py into a separate function | Zachary Sloan |
| 2013-04-11 | Fixed a bug with quick_search_table.py...Edited generate_probesetfreeze_file.py to try running it on the dataset with incorrect regression lines | Zachary Sloan |
| 2013-04-10 | Created template for quick search page...Fixed a couple bugs with quick_search_table.py | Zachary Sloan |
| 2013-04-09 | Have quick search working for phenotypes | 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 | Loading bar now correctly shows the time to completion...and the code seems to run correctly | Zachary Sloan |
| 2013-04-05 | Made change to nginx config file that seems to have fixed the...504 gateway timeout issue with the human datasets | Zachary Sloan |
| 2013-04-05 | Got Nick's code working with the MDP datasets under the BXD group,...but with only BXD strains | Zachary Sloan |
| 2013-04-05 | Made changes to get pylmm code working with HMDP datasets | Zachary Sloan |
| 2013-04-02 | Finished adding code that uses the plink genotype data if...a human dataset and json data if any other species | 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 |
| 2013-03-28 | quick_search_table.py seems to be running OK for the PublishXRef...table, but will need to check later to make sure | Zachary Sloan |
| 2013-03-28 | quick_search_table.py now seems to run correctly for ProbeSetXRef...rows | Zachary Sloan |
| 2013-03-28 | Committing before putting quick_search_table code in classes | Zachary Sloan |
| 2013-03-27 | Got quick_search_table.py to a point where it runs; will...know tomorrow whether it ran correctly or not | Zachary Sloan |
| 2013-03-27 | Worked on trying to get results for quick search to display | Zachary Sloan |
| 2013-03-26 | Continued working on quick_search_table.py, which now gets...all of the terms from the ProbeSet table to be included in the quick search | Zachary Sloan |
| 2013-03-26 | Created quick_search_table.py to create table with all of the...information needed for the the quick search features (which searches across all datasets) | Zachary Sloan |
| 2013-03-26 | Just checking in code while in the process of trying to get...the quick search working properly | Zachary Sloan |
| 2013-03-22 | Began creating templates for login/registration | Zachary Sloan |
| 2013-03-22 | Added secure_server.py...Updated notes.txt | Zachary Sloan |
| 2013-03-22 | Removed zach_settings.py from git tracking...Changed mysql password as a result of it being up on git before | Zachary Sloan |
| 2013-03-21 | Did some work towards getting Nick's code working with our plink...human genotype files Tried to get the automatic searches working when points are highlighted on the marker regression manhattan plot | Zachary Sloan |
| 2013-03-19 | In the process of trying to use Nick's pylmmKinship.py code to...precompute the kinship matrix for the human datasets we have plink .bed genotype data for | Zachary Sloan |
| 2013-03-19 | Added Nick's input.py file which uses plink .ped files as input...for his pylmm code | 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 |
| 2013-03-15 | Began work with implementing general search | Zachary Sloan |
| 2013-03-15 | Changes related to searching for selected points in marker regression plot | Zachary Sloan |
| 2013-03-13 | Merge branch 'flask' of http://github.com/zsloan/genenetwork into flask | Zachary Sloan |
| 2013-03-13 | Added some to notes | 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 | Highlighting points works in Firefox but still doesn't work in chrome...Also noticed issue with chromosome ordering in Firefox | Zachary Sloan |
| 2013-03-12 | Got cashing working with pickle | Zachary Sloan |
| 2013-03-09 | Trying to get caching working with pickle now | Zachary Sloan |
| 2013-03-08 | Caching is working for marker regression but really slowly | Zachary Sloan |
| 2013-03-08 | Refactored GWAS function in lmm.py | 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 |
| 2013-03-07 | Have first 45% of progress bar working...Changed "threaded" to True in runserver.py; this fixed issue related to getting progress bar to work | Zachary Sloan |
| 2013-03-07 | Created file temp_data to store data related to progress...of the marker regression calculations Storing progress of kinship matrix calculation in variable as portion of 45 (the rough percent of total marker regression calculation time | Zachary Sloan |
| 2013-03-06 | Stored percent of calculate_kinship function completion in...variable | Zachary Sloan |
| 2013-03-06 | Improved positioning/size of copy/print/save buttons for...marker regression table | Zachary Sloan |
| 2013-03-05 | Implemented DataTables; there are now options to download the marker...regression result table in various formats | 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 |
| 2013-02-28 | Updated benchmark.py to aggregate run times when you run the...operation(s) multiple times | Zachary Sloan |
| 2013-02-28 | Added benchmark.py that compares the time of various operations...and gives a report with the percent of total computation time each takes | Zachary Sloan |
| 2013-02-28 | Chromosome labels on marker regression plot are centered...Tick marks are now correct and in intervals of 25 for each chromosome | Zachary Sloan |
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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