| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2017-09-07 | Added the script to convert bimbam to kinship matrices | zsloan | |
| 2017-09-05 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan | |
| 2017-09-05 | Added file converting genofiles to bimbam | zsloan | |
| 2017-09-04 | gemma-wrapper: find binary in profile | Pjotr Prins | |
| 2017-08-29 | Mostly changes related to getting gemma working with covariates and BIMBAM ↵ | zsloan | |
| file format Other changes include: - Fixing links in the network graph - Changing button colors on show trait page - Changing color scheme for heatmap - Making rows highlight in yellow when clicked on - Some changes to table appearance (like giving gene global search a horizontal scroll) | |||
| 2017-08-23 | Update corr scatterplot | Lei Yan | |
| 2017-08-03 | remove brackets | Lei Yan | |
| 2017-08-02 | Remove duplicate codes | Lei Yan | |
| 2017-08-02 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 | Lei Yan | |
| 2017-08-02 | Update Correlation Scatterplot parameters | Lei Yan | |
| 2017-07-06 | Merge branch 'testing' into developmentdevelopment | zsloan | |
| 2017-07-06 | Improved table appearance for global searches | zsloan | |
| Scatterplot Matrix works again Added the first few changes to get covariates working (not done yet) | |||
| 2017-07-03 | Update Statistic table in Correlation Scatterplot | Lei Yan | |
| 2017-06-30 | Fix Correlation Scatterplot axis format | Lei Yan | |
| 2017-06-29 | Update Correlation Scatterplot | Lei Yan | |
| 2017-06-28 | Update Correlation Scatterplot | Lei Yan | |
| 2017-06-26 | Merge branch 'master' of github.com:genenetwork/genenetwork2 | Lei Yan | |
| 2017-06-26 | Fix Correlation Scatterplot things | Lei Yan | |
| 2017-06-14 | Changed color scale for heatmap to blue <-> white <-> red | zsloan | |
| Removed an extraneous character in the gsearch_pheno html | |||
| 2017-06-14 | Removed scatterplot matrix option since it isn't working correctly right now | zsloan | |
| Removed Download as PNG option for Probability Plot since it also isn't working yet | |||
| 2017-06-14 | Added descriptions for GEMMA and PLINK as well as a warning about the issue ↵ | zsloan | |
| with GEMMA where you can't run it simultaneously on two traits from the same group | |||
| 2017-06-13 | Fixed trait links in network graph nodes | zsloan | |
| Added warning notifying users that file upload option in the submit_trait page doesn't work yet | |||
| 2017-06-13 | Added to border to table footer in search results | zsloan | |
| 2017-06-13 | Fixed issue that caused haplotype analyst to no longer work | zsloan | |
| Fixed Results table for centimorgan results to display cM instead of Mb | |||
| 2017-06-13 | Fixed minor issue where the part of the legend describing the LRS/LOD line ↵ | zsloan | |
| still appeared for manhattan plots | |||
| 2017-06-12 | Merge branch 'development' of github.com:genenetwork/genenetwork2 into ↵ | zsloan | |
| development | |||
| 2017-06-12 | Added explanatory text to heatmap page | zsloan | |
| 2017-06-12 | Fix binary paths for GEMMA_COMMAND, PYLMM_COMMAND and PLINK_COMMAND | Pjotr Prins | |
| 2017-06-12 | Fixed issue where 0.0 values would be converted into X's on the trait page | zsloan | |
| 2017-06-09 | Merge /home/staging/gene into development | zsloan | |
| 2017-06-09 | - Changed the way the genofile is set so different genofiles can be selected ↵ | zsloan | |
| for mapping - Now shows error page for Correlation Matrix if traits aren't all from the same group (later need to make it check for shared samples, since different groups may contain some of the same samples - Mapping results page now displays the genofile in the information section - Only show Interval Analyst if species is mouse or rat (previously it would show a blank table for other species) - Network Graph now only shows links in a node's info if the relevant information (for example geneid) exists, and the label changes depending on the type of data set - Other minor changes to the appearance of the Network Graph menu (less white space, plus clickable descriptions for a couple options) - Improved Correlations Results page to shorten Description and Authors cell content for Phenotype traits (to keep table width manageable) - Changed the glossary links for LRS and Additive Effect columns for Gene Global Search - Improved appearance for Phenotype Global Search results - Temporarily removed Mapping options/features that don't work from the trait page | |||
| 2017-06-02 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| 2017-06-02 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2017-06-02 | settings: do not enforce JS paths | Pjotr Prins | |
| 2017-05-31 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| 2017-05-31 | Added various tool options to correlation results page and improved table ↵ | zsloan | |
| appearance for mRNA assay data sets (still need to improve it for others) Fixed minor logic issue in trait.py | |||
| 2017-05-31 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2017-05-31 | JS_GUIX_PATH may not be there | Pjotr Prins | |
| 2017-05-31 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2017-05-31 | JS module handling | Pjotr Prins | |
| 2017-05-22 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| 2017-05-22 | Added submit trait to header menu and fixed some minor issues with Network ↵ | zsloan | |
| Graph interface | |||
| 2017-05-22 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2017-05-22 | Added print lines showing url to views.py and updated dataset menu json file | zsloan | |
| 2017-05-21 | Merge from the diet branch. | Pjotr Prins | |
| * refactored ./bin/genenetwork2 and /etc/default_settings - better detection of Guix - removed unused parameters, such as GEMMA_RESULT_PATH and TEMP_TRAITS - removing some default settings, such as PYLMM_COMMAND - rename some settings, such as SQL_URI and LOG_SQL_ALCHEMY - added GUIX_JS_PATH for JS modules * Added documentation on installing binary GN2 * Updated Twitter board to latest version in Guix - it had broken * Updated many tools in the latest Guix profile | |||
| 2017-05-16 | Fixed issue that caused mapping to not work for R/qtl | zsloan | |
| Updated dataset menu dropdown info Began adding option to download statistics figures as PNG | |||
| 2017-05-08 | corr_scatter_plot update (use nvd3) | Lei Yan | |
| 2017-05-04 | renamed: gn2_lei.conf -> gn2-lei.conf | Lei Yan | |
| 2017-05-04 | Merge branch 'master' of github.com:genenetwork/genenetwork2 | Lei Yan | |
| 2017-04-25 | Fixed issue with correlation result trait links if target dataset is ↵ | zsloan | |
| different from base dataset Improved collection list and view table appearances Added question mark image for glossary entries in table headers Fixed issue where extra decimal place sometimes appeared in bar chart Y axis tick values | |||
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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