| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2013-02-20 | Created y-axis | Zachary Sloan | |
| 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 | |||
| 2013-02-19 | Manhattan plot and chromosome lines are all correct now | Zachary Sloan | |
| Hovering over a point automatically searches for its corresponding marker in the data table Added headers for the plot and table | |||
| 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 | Zachary Sloan | |
| value to appear above the plot | |||
| 2013-02-15 | Made it to where hovering over a point in the manhattan plot changes | Zachary Sloan | |
| its style | |||
| 2013-02-15 | Created lines in marker regression scatter plot separating | Zachary Sloan | |
| chromosomes | |||
| 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) | Zachary Sloan | |
| using d3.js | |||
| 2013-02-13 | Got results displaying for BXD and fixed genofile_parser.py to work | Zachary Sloan | |
| for all of our genofiles | |||
| 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 | Zachary Sloan | |
| with Nick's code | |||
| 2013-02-12 | Edited marker_regression.py and data_set.py to store the p-values | Zachary Sloan | |
| and their corresponding markers to be used in the table of qtl results and other figures | |||
| 2013-02-08 | Converted .geno files to json files and wrote code in marker_regression.py | Zachary Sloan | |
| 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) | |||
| 2013-02-07 | Added code to marker_regression.py that creates the numpy arrays to | Zachary Sloan | |
| 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 | |||
| 2013-02-06 | Edited genofile_parser.py to go through all genofiles and convert | Zachary Sloan | |
| them to the format used by nick's code | |||
| 2013-02-06 | Added changes to example.py and prep_data.py that lets nick's code read in | Zachary Sloan | |
| our data | |||
| 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 | Zachary Sloan | |
| 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 | |||
| 2013-01-31 | Changed fd to kw in search_results.py, commented out some lines | Zachary Sloan | |
| related to fd | |||
| 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 | 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 | |||
| 2013-01-11 | Commented out import of rpy2 in correlationFunction.py due to | Zachary Sloan | |
| problem with rpy2 | |||
| 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 | Zachary Sloan | |
| plot figure` | |||
| 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. | Zachary Sloan | |
| Committing before trying to combine all the manhattan plot segments | |||
| 2013-01-10 | Edited marker_regression.coffee to make every sub-manhattan plot | Zachary Sloan | |
| 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 | |||
| 2013-01-10 | Made Chromosome class in marker_regression.coffee; current | Zachary Sloan | |
| it writes each chromosome's manhattan plot on top of each other. This commit is before trying to fix that. | |||
| 2013-01-10 | Made x-axis values into ints; committing before trying to add multiple graphs | Zachary Sloan | |
| for each chromosome | |||
| 2013-01-10 | Worked with the manhattan plot coffeescript to set x-axis and change | Zachary Sloan | |
| the plot point sizes and remove lines | |||
| 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 | Zachary Sloan | |
| still displays correctly | |||
| 2013-01-09 | Checking in before putting the histogram coffeescript into its own | Zachary Sloan | |
| class | |||
| 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 | Zachary Sloan | |
| it into a bar graph, though | |||
| 2013-01-09 | jqplot added | Zachary Sloan | |
| 2013-01-09 | Got the marker regression page to display again | Zachary Sloan | |
| Passed lrs_array values as js_data for the permutation histogram | |||
| 2013-01-08 | js_data is being printed out (seemingly) correctly now for the | Zachary Sloan | |
| marker_regression page | |||
| 2013-01-08 | Created IndChromosome class in species.py and wrote functions for | Zachary Sloan | |
| chromosome-related attributes Began to try and pass qtlreaper results as js_data to use when drawing graphs | |||
| 2013-01-08 | Deleted some unnecessary code in marker_regression.py and fixed some bugs | Zachary Sloan | |
| Added a couple utility functions to the Chromosomes class in species.py | |||
| 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 | Zachary Sloan | |
| in species.py | |||
 |
index : genenetwork2 | |
| GeneNetwork (2nd generation) |
| aboutsummaryrefslogtreecommitdiff |