| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-06-29 | gn3: diff: Set success_codes when running the diff tool | BonfaceKilz | |
| 2021-06-29 | Add a diffing function | BonfaceKilz | |
| For now the diff function uses the Linux tool "diff" to generate the diff since it is efficient and straightforward. * gn3/computations/diff.py (generate_diff): New function. * tests/unit/computations/test_diff.py: Test cases for ☝🏾. | |||
| 2021-06-23 | fix pylint issues | Alexander Kabui | |
| 2021-06-23 | minor fixes for biweight script | Alexander Kabui | |
| 2021-06-20 | minor fix docstring | Alexander Kabui | |
| 2021-06-20 | merge main | Alexander Kabui | |
| 2021-06-20 | make requested changes to biweight | Alexander Kabui | |
| 2021-06-18 | Fixed pylint issues | zsloan | |
| 2021-06-18 | Resolve mypy errors in computations/rqtl.py | zsloan | |
| 2021-06-18 | Fixed spelling of coeffient to coefficient | zsloan | |
| 2021-06-18 | fix index error (#16) | Alexander Kabui | |
| 2021-06-16 | add r-wgna package | Alexander Kabui | |
| 2021-06-16 | minor fix | Alexander Kabui | |
| 2021-06-16 | refactor script and add tests | Alexander Kabui | |
| 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 | |
| 2021-05-25 | Include code that processes rqtl output files and returns actual results ↵ | zsloan | |
| instead of just the output filename | |||
| 2021-05-19 | Temporarily replace forward-slashes with underscores, since they can be ↵ | zsloan | |
| included in the hashes used for filenames | |||
| 2021-05-18 | Fixed generate_rqtl_cmd to make the kwarg hash from a combination of ↵ | zsloan | |
| keywords and arguments + account for boolean kwargs without values (like --interval or --covar) | |||
| 2021-05-18 | Fixed variety of issues detected by pylint | zsloan | |
| 2021-05-17 | Created compose_rqtl_command and generate_rqtl_command to create the actual ↵ | zsloan | |
| command to be run from the command line; used the same pattern as for GEMMA for consistency | |||
| 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 | |||
 |
index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
| aboutsummaryrefslogtreecommitdiff |