diff options
| author | Frederick Muriuki Muriithi | 2021-10-29 04:55:30 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2021-10-29 04:55:30 +0300 |
| commit | 4c73d70d6d844bf2fa3358c71b9e28daff51e69c (patch) | |
| tree | d029c937f0d6316ef541c5aa9d0c7973c3390e41 | |
| parent | 5fd3bfe587144a61c66ebf730c4818071b1a9661 (diff) | |
| download | genenetwork3-4c73d70d6d844bf2fa3358c71b9e28daff51e69c.tar.gz | |
Move the function to computations module
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi
* The function `batch_computed_tissue_correlation` is a pure computations
function with no expressions accessing the database, as far as I can tell,
therefore, this commit moves the function over to the
gn3.computations.partial_correlations module that holds the pure computation
functions.
| -rw-r--r-- | gn3/computations/partial_correlations.py | 8 | ||||
| -rw-r--r-- | gn3/db/correlations.py | 8 |
2 files changed, 8 insertions, 8 deletions
diff --git a/gn3/computations/partial_correlations.py b/gn3/computations/partial_correlations.py index 1fb0ccc..b3de31c 100644 --- a/gn3/computations/partial_correlations.py +++ b/gn3/computations/partial_correlations.py @@ -122,3 +122,11 @@ def find_identical_traits( (primary_name,) + control_names), {}).items() if len(item[1]) > 1), tuple())) + +def batch_computed_tissue_correlation( + trait_value: str, symbol_value_dict: dict, + method: str = "pearson") -> Tuple[dict, dict]: + """ + `web.webqtl.correlation.correlationFunction.batchCalTissueCorr`""" + raise Exception("Not implemented!") + return ({}, {}) diff --git a/gn3/db/correlations.py b/gn3/db/correlations.py index 54d3079..f43b8a5 100644 --- a/gn3/db/correlations.py +++ b/gn3/db/correlations.py @@ -281,14 +281,6 @@ def fetch_gene_symbol_tissue_value_dict_for_trait( return fetch_gene_symbol_tissue_value_dict(xref_info[0], xref_info[2], conn) return {} -def batch_computed_tissue_correlation( - trait_value: str, symbol_value_dict: dict, - method: str = "pearson") -> Tuple[dict, dict]: - """ - `web.webqtl.correlation.correlationFunction.batchCalTissueCorr`""" - raise Exception("Not implemented!") - return ({}, {}) - def correlations_of_all_tissue_traits( trait_symbol: str, probeset_freeze_id: int, method: str, conn: Any) -> Tuple[dict, dict]: |