| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-09-23 | read generated files from r and return output | Alexander Kabui | |
| 2021-09-23 | check for na powerEst and use a default value | Alexander Kabui | |
| 2021-09-23 | append input to output | Alexander Kabui | |
| 2021-09-23 | sample output data | Alexander Kabui | |
| 2021-09-23 | validate required output | Alexander Kabui | |
| 2021-09-23 | add mock test data for script | Alexander Kabui | |
| 2021-09-23 | pass json file path as an arg | Alexander Kabui | |
| 2021-09-23 | pass other variables from user input for network constr | Alexander Kabui | |
| 2021-09-23 | add rjson dependency | Alexander Kabui | |
| 2021-09-23 | load data from json file and and convert to dt | Alexander Kabui | |
| 2021-09-22 | add init tests for call to script | Alexander Kabui | |
| 2021-09-22 | add required wgcna dependencies to guix.scm | Alexander Kabui | |
| 2021-09-22 | jsonify results | Alexander Kabui | |
| 2021-09-22 | init endpoint tests for wgcna | Alexander Kabui | |
| 2021-09-16 | pylint fixes | Alexander Kabui | |
| 2021-09-16 | Add WGCNA_SCRIT env to settings | Alexander Kabui | |
| 2021-09-16 | init tests for wgcna | Alexander Kabui | |
| 2021-09-16 | pass user input to call script | Alexander Kabui | |
| 2021-09-16 | run cmd and add exception handler | Alexander Kabui | |
| 2021-09-16 | register wgcna blueprint | Alexander Kabui | |
| 2021-09-16 | add initial endpoint for wgcna | Alexander Kabui | |
| 2021-09-16 | add function to compose and run wgcna script | Alexander Kabui | |
| 2021-09-16 | function to parse form data and write to json file | Alexander Kabui | |
| 2021-09-15 | initial test file for wgcna | Alexander Kabui | |
| 2021-09-15 | init wgcna file to run r script and preprocess data | Alexander Kabui | |
| 2021-09-15 | remove golang package causing build failure | Alexander Kabui | |
| 2021-09-15 | minor fixes | Alexander Kabui | |
| 2021-09-15 | rename variables && delete debugs | Alexander Kabui | |
| 2021-09-15 | Fetch IMAGE_DIR env and add img location | Alexander Kabui | |
| 2021-09-14 | remove debug statements | Alexander Kabui | |
| 2021-09-14 | function to generate rand str for image | Alexander Kabui | |
| 2021-09-14 | plot plotDendroAndColors and generate png | Alexander Kabui | |
| 2021-09-14 | construct gene co-expression network & module detection | Alexander Kabui | |
| 2021-09-14 | compute the softthreshhold | Alexander Kabui | |
| 2021-09-14 | Checking data for excessive missing values | Alexander Kabui | |
| 2021-09-14 | load the required data for analysis | Alexander Kabui | |
| 2021-09-14 | init commit for wgcna script | Alexander Kabui | |
| 2021-08-28 | README: updated install instructions | Pjotr Prins | |
| 2021-08-28 | Add explanation of using a guix profile | Pjotr Prins | |
| 2021-08-28 | Fix issue that caused R/qtl to not use the first covariate when using ↵ | zsloan | |
| stratified permutations + covariates | |||
| 2021-08-26 | Added # permutations to verbose print | zsloan | |
| 2021-08-20 | Minor correlation fixes (#36) | Alexander Kabui | |
| * fix key error for (*tissue_cor) tissue correlation * update tests for tissue correlation * rename speed_compute to fast_compute * pep8 formatting | |||
| 2021-08-18 | Test the clustering | Muriithi Frederick Muriuki | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * gn3/computations/heatmap.py: Fix clustering bugs * tests/unit/computations/test_heatmap.py: Add new tests. Fix linting issues. Test and fix the clustering function. | |||
| 2021-08-18 | Fix obvious linting errors | Muriithi Frederick Muriuki | |
| * Fix linting errors that do not change the function of the code. | |||
| 2021-08-18 | Make child sequence a list | Muriithi Frederick Muriuki | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Since the `slink` function assigns values to the `listcopy` variable and its children, this commit ensures that the sequence is a list to allow for the assignment. If the child-sequence is a tuple, that would lead to an exception. | |||
| 2021-08-18 | Provide top-level `riset` key-value pair | Muriithi Frederick Muriuki | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Provide the expected, top-level `riset` key-value pair and eliminate the redundant key-value pair. | |||
| 2021-08-18 | Add tests and fix errors caught with tests | Muriithi Frederick Muriuki | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * gn3/computations/heatmap.py: fix errors * tests/unit/computations/test_heatmap.py: new tests Add new tests with the expected source data format, and expected results. Fix all errors that were caught by running the tests | |||
| 2021-08-18 | Fix errors: add in missing parenthesis | Muriithi Frederick Muriuki | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Call the `cursor.fetchone()` function to get results. Without the parenthesis, the code was trying to use the function itself as the results, which was a bug, and would lead to failure. | |||
| 2021-08-18 | Initialise heatmap generation module | Muriithi Frederick Muriuki | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * gn3/heatmaps/heatmaps.py: Initialise the module with some code to be used to test out plotly features on the command-line. * guix.scm: Add `python-plotly` and `python-pandas` as dependencies. | |||
| 2021-08-16 | Merge pull request #32 from genenetwork/heatmap_decompose_db_retrieval | BonfaceKilz | |
| Heatmap decompose db retrieval | |||
 |
index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
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