| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-05-20 | db: phenotypes: Add type for Dataclass | BonfaceKilz | |
| See: https://www.py4u.net/discuss/188952 | |||
| 2021-05-20 | db: phenotypes: Put mapping def after dataclass | BonfaceKilz | |
| 2021-05-20 | db: phenotypes: Add phenotype table mapping | BonfaceKilz | |
| 2021-05-20 | db: phenotypes: Add dataclass to represent PublishXRef | BonfaceKilz | |
| 2021-05-20 | db: phenotype: Make "pylint: disable=[R0902]" global for file | BonfaceKilz | |
| 2021-05-20 | db: phenotypes: Add a way of updating the Phenotype table | BonfaceKilz | |
| * gn3/db/phenotypes.py (Phenotype): New dataclass. (update_phenotype): New function. [phenotype_column_mapping]: New variable. | |||
| 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 | Add end-point for running an rQTL program | BonfaceKilz | |
| * gn3/api/general.py (run_r_qtl): New function. * gn3/settings.py: New variable. | |||
| 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 | |
| 2021-05-10 | db: species: Add method for fetching all species | BonfaceKilz | |
| 2021-05-08 | db: species: Fetch chromosomes using a group or species name | BonfaceKilz | |
| * gn3/db/species.py (get_chromosome): New function. | |||
| 2021-05-08 | gn3: db_utils: Remove mypy ignore stub | BonfaceKilz | |
| MySQLdb is already ignored in ".mypy.ini", added in 88c33df. | |||
| 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 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 | 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 | |
| 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 | replace experimental db | 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 | |
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index : genenetwork3 | |
| GeneNetwork3 REST API for data science and machine learning |
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