dynamically choosing proteins from volcano plot #389
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mschwoer
reviewed
Dec 20, 2024
| @@ -202,14 +202,14 @@ def gather_parameters_and_do_analysis( | |||
| raise ValueError(f"Analysis method {analysis_method} not found.") | |||
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| def gather_uniprot_data(features: list) -> None: | |||
| def gather_uniprot_data(features: list[str]) -> None: | |||
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List[str] .. we're still at 3.8 :-)
| upregulated_genes = [ | ||
| key for key in regulated_genes_dict if regulated_genes_dict[key] == "up" | ||
| ] | ||
| downregulated_genes = [ | ||
| key for key in regulated_genes_dict if regulated_genes_dict[key] == "down" | ||
| ] | ||
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| # Create dataframes with checkboxes for selection | ||
| upregulated_genes_df = pd.DataFrame( | ||
| {"Protein": upregulated_genes, "Selected": [True] * len(upregulated_genes)} |
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This displays a different type of if than the volcano and the rest of the page
check out st.session_state[StateKeys.DATASET]._feature_to_repr_map
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what's the consensus? do we use genes or proteins everywhere?
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DataSet._create_id_dicts defines the current consensus on the representation
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Added functionality to choose which proteins to look up in uniprot and subsequently analyze with an LLM