| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2016-03-23 | You can now select chromosome and an Mb range from the top menu and remap | zsloan | |
| The track in the single chromosome view to zoom into smaller intervals now works correctly again | |||
| 2016-03-23 | Fixed GN1 mapping plots so that Y axis and the Y coordinates of manhattan ↵ | zsloan | |
| plot points are correct Table filters markers so it can always be displayed now (previously was too large for GEMMA) | |||
| 2016-03-21 | Manhattan plot option now works for GN1 map, and GEMMA is set to display as ↵ | zsloan | |
| manhattan plot | |||
| 2016-03-21 | Changed code parsing marker csv file to increase GEMMA speed | zsloan | |
| Currently commenting out the vector map/table for GEMMA since they cause the page to hang, I'll try to figure out a way to prevent this | |||
| 2016-03-18 | Forgot to not retrieve sample data for the phenotype global search with the ↵ | zsloan | |
| last commit, added it now | |||
| 2016-03-18 | Replaced header with other information in qtl map | zsloan | |
| Began adding menu to qtl map Fixed global search to not retrieve samples (to increase speed) Got the vector plot working again so it can be displayed alongside the gn1-style plot Only display the vector plot when doing GEMMA to speed up (this might not be necessary) | |||
| 2016-03-15 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| 2016-03-15 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2016-03-15 | Fixed the mapping figure track that lets you zoom into a smaller range | zsloan | |
| Fixed the third party mapping figure tracks to refer to the correct chromosome (before it was always 1) | |||
| 2016-03-14 | Changed the way headers look across all pages | zsloan | |
| Changed the way details are displayed in show trait page Changed search query so that it orders results by symbol | |||
| 2016-03-03 | Fixed issue where correlation would do mapping if run after mapping | zsloan | |
| 2016-03-03 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| 2016-03-03 | Fixed trait export to include SE values | zsloan | |
| 2016-03-03 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2016-03-03 | Update gsearch.py | Lei Yan | |
| 2016-03-02 | Increased gsearch speed by removing unnecessary query for sample data | zsloan | |
| Still slower than preferable due to having to query the gn1 database for every trait in the search results | |||
| 2016-03-01 | Merge branch 'master' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2016-03-01 | Committing change to dataset menu before pull | zsloan | |
| 2016-03-01 | Fixed csv download and removed non-working "Download Table" button for ↵ | zsloan | |
| collections list, collection view, gene/pheno global search, and regular search Not sure what the best way to determine the filename is, so just using "search_results" or "collection_list" for now In future I want to replace the default csv download button by attaching its function to the previous "Download Table" button | |||
| 2016-02-26 | PLINK should not run correctly and graph using GN1 image | zsloan | |
| Updated dataset menu structure json Increased the width for the label and text field for inputting MAF for PLINK and GEMMA | |||
| 2016-02-25 | fixed untracked files | zsloan | |
| 2016-02-24 | GEMMA mostly working with gn1 mapping, though there may be some issue with ↵ | zsloan | |
| the y scale | |||
| 2016-02-18 | Edited gen_select_dataset to remove confidential datasets | zsloan | |
| Also hard-coded the removal of Macaque Monkey since I couldn't think of a good way to retroactively check if every dataset in a species is confidential | |||
| 2016-02-15 | Fixed R/qtl mapping so the group (BXD, etc) isn't hardcoded | zsloan | |
| Removed an extraneous </td> tag from the show trait page | |||
| 2016-02-11 | Updated jquery validation plugin, now works in IE | zsloan | |
| Fixed a couple minor html syntax erors in login_user.html and base.html Changed export button on correlation page to csvHtml5, but still has problem with commas in fields being interpreted as a new column | |||
| 2016-02-08 | Fixed the logic if how the correlation page applies filters (mean ↵ | zsloan | |
| expression, location, etc) Added back some colorbox directories that we apparently need (I had removed them in an earlier commit) | |||
| 2016-02-08 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| Conflicts: .gitignore | |||
| 2016-02-08 | gitignore: resolved conflict | pjotrp | |
| 2016-02-04 | Most importantly, this commit fixes an issue that caused the trait page to ↵ | zsloan | |
| not work because of the new dataset_menu_structure.json file An Intro section is also added to the header, though for the time being its contents aren't populated and the edit option isn't working | |||
| 2016-01-29 | Info button should now work for phenotype and genotype datasets | zsloan | |
| 2016-01-27 | Merge branch 'master' of github.com:genenetwork/genenetwork2 into development | zsloan | |
| 2016-01-27 | Added info button to Dataset dropdown on index page | zsloan | |
| Fixed script that generates dataset dropdown json file to include accession id Fixed dataset link on search results page | |||
| 2016-01-26 | Removed a bunch of files/directories/packages that are no longer used and ↵ | zsloan | |
| some corresponding imports | |||
| 2016-01-19 | Adding Python setup.py support | pjotrp | |
| 2016-01-15 | Cofactor now works with reaper | zsloan | |
| 2016-01-14 | Regular and single chr views work for qtl reaper now | zsloan | |
| Single chr now works for R/qtl (didn't before) Merged qtl reaper code into marker_regression.py | |||
| 2016-01-12 | Mapping works for rqtl and centimorgan scale | zsloan | |
| 2016-01-06 | Single chromosome view now works for mapping page using GN1's image code | zsloan | |
| Removed loading bar that appeared on show trait page since it didn't work with GN1 mapping (which opens in a new page) | |||
| 2016-01-04 | Added headers/foots/css to mapping page | zsloan | |
| Mapping results table now works | |||
| 2015-12-18 | Mapping results open in new window; still need to add header/footer/js | zsloan | |
| 2015-12-18 | Added image map for figure | zsloan | |
| 2015-12-15 | Added the js_data so both the GN1 and GN2 figures can be displayed | zsloan | |
| 2015-12-14 | GN1 mapping full genome figure now correct for pylmm and output to web page | zsloan | |
| 2015-12-12 | Changed loop drawing qtl curve to fix some issues; still need to make it ↵ | zsloan | |
| draw to different chr areas though | |||
| 2015-12-09 | Disabled GN1 mapping for master branch; mistakenly pushed with it enabled before | zsloan | |
| 2015-12-09 | Fixed search result page text to make sense for all working search terms | zsloan | |
| Added a bunch of print statements to GN1 mapping code to locate where code stalls | |||
| 2015-12-04 | Commented out code related to additive/dominance effect in gn1 marker ↵ | zsloan | |
| regression code; gn1 code now runs without errors but still need to give output to template | |||
| 2015-11-18 | Fixed issue where literature and tissue correlation didn't work | zsloan | |
| Scatterplot matrix feature only appears if user is logged in now Committing current progress on mapping page (it can at least import the file now, but there are still errors) | |||
| 2015-11-09 | Fixed issue that caused mapping to not work; for some reason the path to ↵ | zsloan | |
| pylmm was wrong | |||
| 2015-11-05 | Fixed issue where misplaced html comment end hid all phenotype table results | zsloan | |
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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