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| author | Frederick Muriuki Muriithi | 2021-10-26 08:59:30 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2021-10-26 08:59:30 +0300 |
| commit | b7c77e2e846a6ddcf308fef5dfb9941f44d6e72a (patch) | |
| tree | ca5337f25edf42abd4a5d87441e2400572ab1634 /gn3/db | |
| parent | c13afb3af166d2b01e4f9fd9b09bb231f0a63cb1 (diff) | |
| download | genenetwork3-b7c77e2e846a6ddcf308fef5dfb9941f44d6e72a.tar.gz | |
Implement `fetch_gene_symbol_tissue_value_dict_for_trait`
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi
* Implement `fetch_gene_symbol_tissue_value_dict_for_trait` function which is
a migration of the
`web.webqtl.correlation.correlationFunction.getGeneSymbolTissueValueDictForTrait`
function in GeneNetwork1.
Diffstat (limited to 'gn3/db')
| -rw-r--r-- | gn3/db/correlations.py | 15 |
1 files changed, 15 insertions, 0 deletions
diff --git a/gn3/db/correlations.py b/gn3/db/correlations.py index 87ab082..cae8080 100644 --- a/gn3/db/correlations.py +++ b/gn3/db/correlations.py @@ -266,7 +266,22 @@ def fetch_tissue_probeset_xref_info( (tuple(), {}, {}, {}, {}, {}, {})) def correlations_of_all_tissue_traits() -> Tuple[dict, dict]: +def fetch_gene_symbol_tissue_value_dict_for_trait( + gene_name_list: Tuple[str, ...], probeset_freeze_id: int, + conn: Any) -> dict: + """ + Fetches a map of the gene symbols to the tissue values. + + This is a migration of the + `web.webqtl.correlation.correlationFunction.getGeneSymbolTissueValueDictForTrait` + function in GeneNetwork1. """ + xref_info = fetch_tissue_probeset_xref_info( + gene_name_list, probeset_freeze_id, conn) + if xref_info[0]: + return fetch_gene_symbol_tissue_value_dict(xref_info[0], xref_info[2], conn) + return {} + This is a migration of the `web.webqtl.correlation.CorrelationPage.calculateCorrOfAllTissueTrait` function in GeneNetwork1. |