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| author | Frederick Muriuki Muriithi | 2021-12-08 07:22:13 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2021-12-08 07:22:13 +0300 |
| commit | eff7e0b649c88d6886c3cfce820327872afb7c3b (patch) | |
| tree | ebd2077b8a0bc0968737986d89bf9ed6af1c94f1 /gn3 | |
| parent | 0cfcea15c56e4ccd4379599076aabd13715cd873 (diff) | |
| download | genenetwork3-eff7e0b649c88d6886c3cfce820327872afb7c3b.tar.gz | |
Provide group from primary trait
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi
* From the collections page, the group is not present, so this commit
retrieves the group value from the primary trait.
Diffstat (limited to 'gn3')
| -rw-r--r-- | gn3/computations/partial_correlations.py | 3 |
1 files changed, 2 insertions, 1 deletions
diff --git a/gn3/computations/partial_correlations.py b/gn3/computations/partial_correlations.py index 231b0a7..ced44a4 100644 --- a/gn3/computations/partial_correlations.py +++ b/gn3/computations/partial_correlations.py @@ -517,7 +517,7 @@ def tissue_correlation_by_list( def partial_correlations_entry(# pylint: disable=[R0913, R0914, R0911] conn: Any, primary_trait_name: str, control_trait_names: Tuple[str, ...], method: str, - criteria: int, group: str, target_db_name: str) -> dict: + criteria: int, target_db_name: str) -> dict: """ This is the 'ochestration' function for the partial-correlation feature. @@ -533,6 +533,7 @@ def partial_correlations_entry(# pylint: disable=[R0913, R0914, R0911] corr_min_informative = 4 primary_trait = retrieve_trait_info(threshold, primary_trait_name, conn) + group = primary_trait["group"] primary_trait_data = retrieve_trait_data(primary_trait, conn) primary_samples, primary_values, _primary_variances = export_informative( primary_trait_data) |