| Age | Commit message (Expand) | Author |
|---|---|---|
| 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 |
| 2013-02-23 | A static progress bar now displays when loading the marker regression results | Zachary Sloan |
| 2013-02-22 | Added some to notes | Zachary Sloan |
| 2013-02-21 | Added underscore.js | Zachary Sloan |
| 2013-02-21 | Add my_pylmm package | Zachary Sloan |
| 2013-02-21 | Plot points and chromosome lines are now correct | Zachary Sloan |
| 2013-02-20 | Did more work with manhattan plot, trying to fix a small issue...with the location of points on the x-axis | Zachary Sloan |
| 2013-02-20 | Created y-axis...Split create_graph into many functions Added a buffer to the x and y dimensions in order to add tick labels for the x and y axis | Zachary Sloan |
| 2013-02-19 | Manhattan plot and chromosome lines are all correct now...Hovering over a point automatically searches for its corresponding marker in the data table Added headers for the plot and table | Zachary Sloan |
| 2013-02-19 | Made lines for manhattan plot proportional to chromosome lengths | Zachary Sloan |
| 2013-02-15 | Points are labeled with marker names and hovering causes the LRS...value to appear above the plot | Zachary Sloan |
| 2013-02-15 | Made it to where hovering over a point in the manhattan plot changes...its style | Zachary Sloan |
| 2013-02-15 | Created lines in marker regression scatter plot separating...chromosomes | Zachary Sloan |
| 2013-02-14 | Put coffeescript code for manhattan plot into a class/functions | Zachary Sloan |
| 2013-02-14 | Have marker regression results displaying as a scatterplot (just the points)...using d3.js | Zachary Sloan |
| 2013-02-13 | Got results displaying for BXD and fixed genofile_parser.py to work...for all of our genofiles | Zachary Sloan |
| 2013-02-13 | Got results for marker regression page displaying in table | 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 |
| 2013-02-08 | Converted .geno files to json files and wrote code in marker_regression.py...that loads the json files, converts them into the relevant numpy arrays, and passes them into Nick's code (which is returning results that may or may not be correct, but is at least running) | 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 |
| 2013-02-06 | Edited genofile_parser.py to go through all genofiles and convert...them to the format used by nick's code | Zachary Sloan |
| 2013-02-06 | Added changes to example.py and prep_data.py that lets nick's code read in...our data | Zachary Sloan |
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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