| Age | Commit message (Expand) | Author |
|---|---|---|
| 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 |
| 2013-02-06 | Small change to search_results.py to get search results page to work | Zachary Sloan |
| 2013-01-31 | Added wqflask-nginx.conf | Zachary Sloan |
| 2013-01-31 | Copied over nginx.conf from /etc/nginx | Zachary Sloan |
| 2013-01-31 | Merge branch 'flask' of https://github.com/zsloan/genenetwork into flask | Zachary Sloan |
| 2013-01-31 | Changed reference to 'dataset_name' in keywords to 'dataset' to get...page to work, but will change all references to the dataset name to 'dataset_name' in future to avoid confusion between the dataset name and the actual dataset object | 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 |
| 2013-01-22 | Pushed through a few errors in getting the correlation page running | 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 |
| 2013-01-11 | Commented out import of rpy2 in correlationFunction.py due to...problem with rpy2 | Zachary Sloan |
| 2013-01-11 | Upgraded packages requirements.txt but haven't tested | Zachary Sloan |
| 2013-01-11 | Overwrote requirements.txt | Zachary Sloan |
| 2013-01-11 | Trimmed a bunch of code off of marker_regression.py | Zachary Sloan |
| 2013-01-10 | Checking in before we try to write our own code for the manhattan...plot figure` | Zachary Sloan |
| 2013-01-10 | Checking in before trying to put manhattan plot sections closer together | Zachary Sloan |
| 2013-01-10 | Normalized the y axis for each manhattan plot section | Zachary Sloan |
| 2013-01-10 | The plots now correctly appear above/below each other....Committing before trying to combine all the manhattan plot segments | Zachary Sloan |
| 2013-01-10 | Edited marker_regression.coffee to make every sub-manhattan plot...for each chromosome display Created css file for the marker_regression page Currently has display issue where the permutation histogram is overlapping with the manhattan plot | Zachary Sloan |
| 2013-01-10 | Made Chromosome class in marker_regression.coffee; current...it writes each chromosome's manhattan plot on top of each other. This commit is before trying to fix that. | Zachary Sloan |
| 2013-01-10 | Made x-axis values into ints; committing before trying to add multiple graphs...for each chromosome | Zachary Sloan |
| 2013-01-10 | Worked with the manhattan plot coffeescript to set x-axis and change...the plot point sizes and remove lines | Zachary Sloan |
| 2013-01-09 | Manhattan plot results are appearing correctly for chromosome 1 | Zachary Sloan |
| 2013-01-09 | The histogram coffeescript is now in its own class and the graph...still displays correctly | Zachary Sloan |
| 2013-01-09 | Checking in before putting the histogram coffeescript into its own...class | Zachary Sloan |
| 2013-01-09 | More or less finished the permutation histogram | Zachary Sloan |
| 2013-01-09 | Got the permutation plot working as a line plot; still need to make...it into a bar graph, though | Zachary Sloan |
| 2013-01-09 | jqplot added | Zachary Sloan |
| 2013-01-09 | Got the marker regression page to display again...Passed lrs_array values as js_data for the permutation histogram | Zachary Sloan |
| 2013-01-08 | js_data is being printed out (seemingly) correctly now for the...marker_regression page | 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 |
| 2013-01-08 | Deleted some unnecessary code in marker_regression.py and fixed some bugs...Added a couple utility functions to the Chromosomes class in species.py | Zachary Sloan |
| 2013-01-04 | Continued rewriting marker_regression.py code | Zachary Sloan |
| 2013-01-04 | Correct results are being returned from reaper for the marker regression page | Zachary Sloan |
| 2013-01-03 | Began working on marker_regression.py and created Chromosomes class...in species.py | Zachary Sloan |
| 2013-01-03 | marker_regression page is up again | Zachary Sloan |
| 2013-01-03 | Created template for marek regression page and made the compute button direct...to it added asbolute_import in data_set.py and trait.py Made several minor changes and deleted commented out code in trait.py | Zachary Sloan |
| 2012-12-20 | Changed layout of marker regression options | Zachary Sloan |
| 2012-12-20 | The control locus field in the interval mapping settings is now disabled if..."choose closest control" is set to "yes" | Zachary Sloan |
| 2012-12-20 | Made composite mapping options show/hide for the interval mapping section | Zachary Sloan |
| 2012-12-20 | More changes to the layout of interval mapping options | Zachary Sloan |
| 2012-12-20 | Continued to customize the interval mapping menu | Zachary Sloan |
| 2012-12-20 | Improved appearance/layout of the interval mapping tab using bootstrap | Zachary Sloan |
| 2012-12-20 | Form data passed via POST for marker regression...Removed "Use Parents" and "Use Weighted" Created text box to input # permutations for pair scan | Zachary Sloan |
| 2012-12-18 | Changed html for the marker regression tab...Created file show_trait_mapping_tools.coffee to handle submitting the form to the marker regression page Changed form name/id in show_trait.html to "trait_data_form" | Zachary Sloan |
| 2012-12-18 | Created new file species.py and species class object TheSpecies...Converted html for the mapping tabs to bootstrap and redid html inside of the Interval Mapping tab Added text input for # of permutation tests and bootstrap tests | Zachary Sloan |
| 2012-12-07 | Got links working for statistics table labels | Zachary Sloan |
 |
index : genenetwork2 | |
| GeneNetwork (2nd generation) |
| aboutsummaryrefslogtreecommitdiff |