Age | Commit message (Expand) | Author |
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 |
2021-05-14 | README | Pjotr Prins |
2021-05-13 | tests: test_general: Add test case for run_r_qtl endpoint | BonfaceKilz |
2021-05-13 | Add end-point for running an rQTL program•••* gn3/api/general.py (run_r_qtl): New function.
* gn3/settings.py: New variable.
| BonfaceKilz |
2021-05-13 | Rename file_utils to fs_helpers•••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...
| BonfaceKilz |
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 |
2021-05-10 | tests: test_species: Add test for `get_all_species` | BonfaceKilz |
2021-05-10 | db: species: Add method for fetching all species | BonfaceKilz |
2021-05-10 | tests: test_gemma: Add TMPDIR to test_client() | BonfaceKilz |
2021-05-10 | setup.py: Add gn3.api to packages | BonfaceKilz |
2021-05-10 | setup.py: Remove gn3.utility from packages | BonfaceKilz |
2021-05-10 | guix.scm: Add missing comma in propagated-input | BonfaceKilz |
2021-05-08 | guix.scm: Add python-numpy and python-requests | BonfaceKilz |
2021-05-08 | setup.py: Create basic setup file | BonfaceKilz |
2021-05-08 | Fix typo | BonfaceKilz |
2021-05-08 | tests: test_species: New tests | BonfaceKilz |
2021-05-08 | db: species: Fetch chromosomes using a group or species name•••* gn3/db/species.py (get_chromosome): New function.
| BonfaceKilz |
2021-05-08 | gn3: db_utils: Remove mypy ignore stub•••MySQLdb is already ignored in ".mypy.ini", added in 88c33df.
| BonfaceKilz |
2021-05-08 | Ignore missing stub imports from MySQLdb | BonfaceKilz |
2021-05-08 | Fix pep-8 errors | BonfaceKilz |
2021-05-08 | db: traits: Add extra method for looking up webqtl datasets | BonfaceKilz |
2021-05-08 | db: traits: Update method for inserting publication method | BonfaceKilz |
2021-05-08 | Add method for inserting publication_data | BonfaceKilz |
2021-05-08 | Add webqtlCaseData DS to keep track of case data in one trait | BonfaceKilz |
2021-05-08 | Replace namedtuple with a dataclass | BonfaceKilz |
2021-05-08 | Add method for inserting phenotypes | BonfaceKilz |
2021-05-08 | Add method for inserting publications | BonfaceKilz |
2021-05-08 | Add method to fetch riset name and id | BonfaceKilz |
2021-05-08 | Add endpoints for (batch) entering phenotypes and genotypes | BonfaceKilz |
2021-05-08 | Add issue and PR templates | BonfaceKilz |
2021-05-08 | Add extra procedure for parsing a genotype file•••* gn3/computations/parsers.py (parse_genofile): New procedure.
* tests/unit/computations/test_parsers.py: New test files for above.
| BonfaceKilz |
2021-05-08 | Add extra genotype test file•••* tests/unit/test_data/genotype.txt: New file.
* tests/unit/test_file_utils.py: Update failing test.
| BonfaceKilz |
2021-05-08 | Add python-mysqlclient as a dependency | BonfaceKilz |
2021-05-05 | Merge pull request #9 from genenetwork/Feature/speed-up-correlation•••Feature/speed up correlation | BonfaceKilz |
2021-05-03 | add default no of cores | Alexander Kabui |
2021-05-03 | modify default SQL_URI | 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 | remove trait and dataset blueprint | 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 |