scsilhouette.cli module

scsilhouette.cli.compute_silhouette_command(h5ad_path: ~pathlib.Path = <typer.models.OptionInfo object>, label_key: str = <typer.models.OptionInfo object>, embedding_key: str = <typer.models.OptionInfo object>, organism: str = <typer.models.OptionInfo object>, disease: str = <typer.models.OptionInfo object>, tissue: str = <typer.models.OptionInfo object>, cell_count: str = <typer.models.OptionInfo object>, use_binary_genes: bool = <typer.models.OptionInfo object>, gene_list_path: ~pathlib.Path | None = <typer.models.OptionInfo object>, metric: str = <typer.models.OptionInfo object>, save_scores: bool = <typer.models.OptionInfo object>, save_cluster_summary: bool = <typer.models.OptionInfo object>, save_annotation: bool = <typer.models.OptionInfo object>)

scsilhouette.cli.main()

scsilhouette.cli.nsforest_genes_command(nsforest_path: ~pathlib.Path = <typer.models.OptionInfo object>)

scsilhouette.cli.viz_correlation_command(cluster_summary_path: ~pathlib.Path = <typer.models.OptionInfo object>, x_metric: str = <typer.models.OptionInfo object>, y_metrics: str = <typer.models.OptionInfo object>, label: str = <typer.models.OptionInfo object>, fscore_path: ~pathlib.Path | None = <typer.models.OptionInfo object>, mapping_path: ~pathlib.Path | None = <typer.models.OptionInfo object>)

scsilhouette.cli.viz_distribution_command(cluster_summary_path: ~pathlib.Path = <typer.models.OptionInfo object>, label_key: str = <typer.models.OptionInfo object>)

scsilhouette.cli.viz_dotplot_command(h5ad_path: str = <typer.models.OptionInfo object>, embedding_key: str = <typer.models.OptionInfo object>, label_key: str = <typer.models.OptionInfo object>)

scsilhouette.cli.viz_summary_command(silhouette_score_path: ~pathlib.Path = <typer.models.OptionInfo object>, silhouette_score_col: str = <typer.models.OptionInfo object>, label_key: str = <typer.models.OptionInfo object>, fscore_path: ~pathlib.Path | None = <typer.models.OptionInfo object>, mapping_path: ~pathlib.Path | None = <typer.models.OptionInfo object>, sort_by: str = <typer.models.OptionInfo object>)