| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2022-03-08 | remove global variables;pep8 formatting | Alexander Kabui | |
| 2022-03-08 | make fixes;variable names and kwargs | Alexander Kabui | |
| 2022-02-27 | code refactoring | Alexander Kabui | |
| 2022-02-25 | integrating generating temp dataset for pca | Alexander Kabui | |
| 2022-02-24 | remove redundant functions and code | Alexander Kabui | |
| 2022-02-24 | init replace rpy2 for pca | Alexander Kabui | |
| 2022-02-21 | Fix incorrect dataset trait data caching | zsloan | |
| Trait data caching wasn't working correctly because it didn't account for the samplelist, causing caching to work incorrect in any situation where the target dataset's samplelist wasn't the same as that of the trait being correlated against. Trait data is stored as a dictionary where the keys are trait IDs and values are *lists* of sample values. This means that the caching needs to account for the exact same set of samples; otherwise you'll end up with samples being mismatched (since "the third sample with a value" for one dataset's trait might not be the same as "the third sample with a value" for another dataset's trait). To fix this, I added the samplelist to the functions that generate and fetch the hash file. This will require more cache files, though, so this should probably be reexamined later to make the code work with only a single cache file for each dataset. | |||
| 2022-02-18 | wqflask: Remove python pre-2.2 checks. | Arun Isaac | |
| These checks are only relevant for python pre-2.2. * wqflask/utility/svg.py: Remove python pre-2.2 checks. | |||
| 2022-02-18 | README: Replace GitHub actions badge with Laminar CI badge. | Arun Isaac | |
| * README.md: Replace GitHub actions badge with Laminar CI badge. | |||
| 2022-02-17 | bin: Allow for not starting redis. | Arun Isaac | |
| redis needs to be started and managed as a separate service. We create a flag NO_REDIS so that it can be so. If NO_REDIS is not defined, the present behavior of starting redis remains. Thus current use cases are not broken. * bin/genenetwork2: Allow for not starting redis with the NO_REDIS flag. | |||
| 2022-02-17 | etc: Close VERSION file after opening. | Arun Isaac | |
| Use a context manager so that the VERSION file is automatically closed on exiting the block. * etc/default_settings.py: Close VERSION file after opening. | |||
| 2022-02-14 | Add search text for cis/transLRS/LOD searches | zsloan | |
| There wasn't any search text for cis/trans searches including both chromosome and exclusion zone, so I added somee | |||
| 2022-02-14 | Fix CisTrans search bug | zsloan | |
| ', Geno' was being added to the FROM clause, which is wrong becausee Geno is included in the query via a JOIN (and caused an error making those searches not work) | |||
| 2022-02-09 | doc: Document how to fetch case-attribute data from a sample-list | BonfaceKilz | |
| 2022-02-09 | variable naming and docstrings fix | Alexander Kabui | |
| 2022-02-09 | handle exceptions | Alexander Kabui | |
| 2022-02-09 | autopep8 formatting | Alexander Kabui | |
| 2022-02-09 | delete unused js packages | Alexander Kabui | |
| 2022-02-09 | autopep8 formatting | Alexander Kabui | |
| 2022-02-09 | fix for performing parametric analysis | Alexander Kabui | |
| 2022-02-09 | minor template fixes | Alexander Kabui | |
| 2022-02-09 | add trait lists and links to ctl plot | Alexander Kabui | |
| 2022-02-09 | disabble autoslide | Alexander Kabui | |
| 2022-02-09 | fix for ctl ui page | Alexander Kabui | |
| 2022-02-09 | endpoint to download network files | Alexander Kabui | |
| 2022-02-09 | btn download for network sif and node file | Alexander Kabui | |
| 2022-02-09 | modify ctl endpoint | Alexander Kabui | |
| 2022-02-09 | minor fixes for images | Alexander Kabui | |
| 2022-02-09 | fix for dcor and LOD rounding | Alexander Kabui | |
| 2022-02-09 | styling for carousel | Alexander Kabui | |
| 2022-02-09 | add carousel for plots | Alexander Kabui | |
| 2022-02-09 | ui form modifications | Alexander Kabui | |
| 2022-02-09 | minor refactoring to destruct objects | Alexander Kabui | |
| 2022-02-09 | template file cleanup | Alexander Kabui | |
| 2022-02-09 | rename template file | Alexander Kabui | |
| 2022-02-09 | minor bug fixes | Alexander Kabui | |
| 2022-02-09 | process significant table results | Alexander Kabui | |
| 2022-02-09 | delete class initiliazation object | Alexander Kabui | |
| 2022-02-09 | minor refactoring | Alexander Kabui | |
| 2022-02-09 | pep8 formatting | Alexander Kabui | |
| 2022-02-09 | fetch pheno input data | Alexander Kabui | |
| 2022-02-09 | parse geno input data | Alexander Kabui | |
| 2022-02-09 | parse input data | Alexander Kabui | |
| 2022-02-09 | init py file:call gn3 ctl api | Alexander Kabui | |
| 2022-02-09 | add ui template for ctl | Alexander Kabui | |
| 2022-02-07 | Double quote shell variables to prevent globbing and word splitting | Frederick Muriuki Muriithi | |
| 2022-02-07 | Add 'api' to root of partial correlations URL | Frederick Muriuki Muriithi | |
| Add api to the root of the partial correlations URL, making it: /api/correlations/partial rather than: /correlations/partial | |||
| 2022-02-05 | Update live jupyter notebooks | jgart | |
| 2022-02-02 | Add covarstruct for rqtl mapping | zsloan | |
| Added a function for generating a covarstruct file required for R/qtl mapping This file contains info on whether each covariate is categorical or numerical and is generated by querying the TraitMetadata table in the DB | |||
| 2022-01-31 | wqflask: Use a more semantic name when downloading samples | BonfaceKilz | |
| * wqflask/wqflask/metadata_edits.py (get_sample_data_as_csv): Save csv file to be downloaded as "sample-name-<dataset_id>.csv" instead of "myplot.csv" | |||
 |
index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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