| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-06-16 | add fetch args function | Alexander Kabui | |
| 2021-06-15 | fix script path issues | Alexander Kabui | |
| 2021-06-14 | fix missing call to bicorAndPvalue | Alexander Kabui | |
| 2021-06-14 | add biweight r script and tests | Alexander Kabui | |
| 2021-05-30 | fix index error (#16) | Alexander Kabui | |
| 2021-05-15 | resolve merge conflict | Alexander Kabui | |
| 2021-05-15 | Merge branch 'main' into feature/minor-fixes | Alexander Kabui | |
| 2021-05-15 | index lit tuple result | Alexander Kabui | |
| 2021-05-13 | Rename file_utils to fs_helpers | BonfaceKilz | |
| Generally avoid naming things with a "utils" prefix/ suffix since it encourages contributors to dump any new functions there; and over time, as the code grows, things get messy... | |||
| 2021-05-13 | computations: correlations: Apply pep-8 | BonfaceKilz | |
| 2021-05-12 | delete unused functions | Alexander Kabui | |
| 2021-05-12 | rename lit_correlation_for_trait_list to lit_correlation_for_trait | Alexander Kabui | |
| 2021-05-12 | rename tissue_correlation_for_trait_list with tissue_correlation_for_trait | Alexander Kabui | |
| 2021-05-12 | rename p_val ro tissue_p_value for tissue_results | Alexander Kabui | |
| 2021-05-08 | Add extra procedure for parsing a genotype file | BonfaceKilz | |
| * gn3/computations/parsers.py (parse_genofile): New procedure. * tests/unit/computations/test_parsers.py: New test files for above. | |||
| 2021-05-03 | add default no of cores | Alexander Kabui | |
| 2021-05-03 | add trait_id fix mypy issues | Alexander Kabui | |
| 2021-05-03 | minor fixes for tiss correlation tests and naming | Alexander Kabui | |
| 2021-05-03 | replace database with conn | Alexander Kabui | |
| 2021-05-02 | delete dataset and trait files | Alexander Kabui | |
| 2021-04-20 | pep8 formatting | Alexander Kabui | |
| 2021-04-20 | add experiment function for computing tissue correlation using multiprocessing | Alexander Kabui | |
| 2021-04-18 | refactor:return trait_name in corr_results | Alexander Kabui | |
| 2021-04-17 | ad pep8 formatting | Alexander Kabui | |
| 2021-04-17 | add sort for correlation results | Alexander Kabui | |
| refactor return data type for tissue and lit | |||
| 2021-04-16 | add benchmark function for sample r | Alexander Kabui | |
| 2021-04-16 | benchmark normal function for sample r | Alexander Kabui | |
| 2021-04-15 | optimization for sample correlation | Alexander Kabui | |
| 2021-04-15 | test endpoint for fetching probeset data types | Alexander Kabui | |
| 2021-04-12 | fix merge conflict | Alexander Kabui | |
| 2021-04-12 | Integrate correlation API | Alexander Kabui | |
| - add new api for gn2-gn3 sample r integration - delete map for sample list to values - add db util file - add python msql-client dependency - add db for fetching lit correlation results - add unittests for db utils - add tests for db_utils - modify api for fetching lit correlation results - refactor Mock Database Connector and unittests - add sql url parser - add SQL URI env variable - refactor code for db utils - modify return data for lit correlation - refactor tissue correlation endpoint - replace db_instance with conn | |||
| 2021-04-06 | fix Docstrings | Alexander Kabui | |
| 2021-04-06 | delete unnecessary functions and comments | Alexander Kabui | |
| 2021-04-05 | fix for fetching dataset traits data | Alexander Kabui | |
| 2021-04-04 | refactor code for trait data | Alexander Kabui | |
| modify unittest and integration tests for datasets | |||
| 2021-04-03 | add tests for getting trait data | Alexander Kabui | |
| 2021-03-31 | add mysqlclient in guix | Alexander Kabui | |
| add env variable for GN2_URL | |||
| 2021-03-31 | add datasets functions and endpoints | Alexander Kabui | |
| 2021-03-30 | refactor retrieve trait sample data and tests | Alexander Kabui | |
| 2021-03-30 | modify getting sample data from db | Alexander Kabui | |
| 2021-03-30 | initial commit for creating dataset | Alexander Kabui | |
| 2021-03-30 | initial commit for creating trait and datasets | Alexander Kabui | |
| 2021-03-23 | Re-add mypy conf file | BonfaceKilz | |
| Deleted in 56ce88a | |||
| 2021-03-17 | gn3: computations: correlations: Apply autopep-8. | BonfaceKilz | |
| 2021-03-16 | Refactor/clean up correlations (#4) | Alexander Kabui | |
| * initial commit for Refactor/clean-up-correlation * add python scipy dependency * initial commit for sample correlation * initial commit for sample correlation endpoint * initial commit for integration and unittest * initial commit for registering correlation blueprint * add and modify unittest and integration tests for correlation * Add compute compute_all_sample_corr method for correlation * add scipy to requirement txt file * add tissue correlation for trait list * add unittest for tissue correlation * add lit correlation for trait list * add unittests for lit correlation for trait list * modify lit correlarion for trait list * add unittests for lit correlation for trait list * add correlation metho in dynamic url * add file format for expected structure input while doing sample correlation * modify input data structure -> add trait id * update tests for sample r correlation * add compute all lit correlation method * add endpoint for computing lit_corr * add unit and integration tests for computing lit corr * add /api/correlation/tissue_corr/{corr_method} endpoint for tissue correlation * add unittest and integration tests for tissue correlation Co-authored-by: BonfaceKilz <bonfacemunyoki@gmail.com> | |||
| 2021-03-10 | Fix k-compute command when "loco" is true | BonfaceKilz | |
| 2021-03-08 | Remove unused imports | BonfaceKilz | |
| 2021-03-08 | Delete "generate_gemma_computation_cmd" | BonfaceKilz | |
| 2021-03-08 | Add generic fn for computing k and gwa values | BonfaceKilz | |
| 2021-03-08 | Apply pep-8 formatting | BonfaceKilz | |
| Began using elpy's format code fn | |||
 |
index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
| aboutsummaryrefslogtreecommitdiff |