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| author | Alexander Kabui | 2021-03-16 11:38:13 +0300 |
|---|---|---|
| committer | GitHub | 2021-03-16 11:38:13 +0300 |
| commit | 56ce88ad31dec3cece63e9370ca4e4c02139753b (patch) | |
| tree | 766504dfaca75a14cc91fc3d88c41d1e775d415f /docs/correlation.md | |
| parent | 43d1bb7f6cd2b5890d5b3eb7c357caafda25a35c (diff) | |
| download | genenetwork3-56ce88ad31dec3cece63e9370ca4e4c02139753b.tar.gz | |
delete unwanted correlation stuff (#5)
* delete unwanted correlation stuff
* Refactor/clean up correlations (#4)
* 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>
* update guix scm file
* fix pylint error for correlations api
Co-authored-by: BonfaceKilz <bonfacemunyoki@gmail.com>
Diffstat (limited to 'docs/correlation.md')
| -rw-r--r-- | docs/correlation.md | 42 |
1 files changed, 0 insertions, 42 deletions
diff --git a/docs/correlation.md b/docs/correlation.md deleted file mode 100644 index bd1b278..0000000 --- a/docs/correlation.md +++ /dev/null @@ -1,42 +0,0 @@ -### endpoint for correlation endpoint - -- The endpoint for correlation is -```python - - /api/correlation/compute/corr_compute -``` - - -**To be noted before spinning the server for correlation computation\which can be set for example env -SQL_URI=mysql://user:password@localhost/db_webqtl and also to GENENETWORK_FILES default is HOME+"/data/genotype_files** - -(required input data *should be in json format*) -- "primary_samples": "", -- "trait_id" -- "dataset" -- "sample_vals" -- "corr_type" -- "corr_dataset" -- "corr_return_results" -- "corr_samples_group" -- "corr_sample_method" -- "min_expr" -- "location_type" -- "loc_chr" -- "min_loc_mb" -- "max_loc_mb" -- "p_range_lower" -- "p_range_upper" - -- example - -```bash -curl -X POST -H "Content-Type: application/json" \ - -d '{"primary_samles":"",trait_id:"","dataset":"","sample_vals":"","corr_type":"",corr_sample_group:"",corr_sample_method:""}' \ - localhost:5000/api/correlation/correlation_compute - - ``` - - -- output data is correlation_json - |