Package index
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BlendExpression2() - Generalized version of Seurat:::BlendExpression
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BlendMap2() - Interactive blend map plot
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BuildClusterTree2() - Build cluster tree for anndata objects
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PseudoBulkExpression2() - Get pseudobulk expression from anndata object
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add_cascade_analysis() - Add new cascade analysis
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check_user_access() - Get data areas a user has access to
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clustreeUI()clustreeServer() - Cluster tree module
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clustSummaryUI()clustSummaryServer() - Metadata viewer module
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coexpressionPlotUI()coexpressionPlotServer() - Coexpression plot module
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controlUI()controlServer() - Filter control module
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create_access_yaml() - Create access yaml
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dimredUI()dimredServer() - Cell embeddings module
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downloadFileUI()downloadFileServer() - Download file module
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downloadPlotUI()downloadPlotServer() - Download button module
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dotplot() - Dotplot
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dotPlotUI()dotPlotServer() - Dotplot module
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feature_blend() - Binned coexpression plot for 2 features
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feature_ly() - Interactive feature plot
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featurePlotUI()featurePlotServer() - Feature plot module
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get_access_path() - Get path to access yaml
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get_binned_exp() - Bin gene expression in columns of a data frame
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get_coexp_legend() - Function to generate coexpression plot legend
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get_coexp_tbl() - Get counts table based on coexpression
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get_coexplt_colors() - Function to return coexpression plot colormaps
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get_config() - Get config
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get_label_trace() - Get plotly label trace
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get_limits() - Get limits of numeric vector
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get_project_name_from_path() - Get project name from path
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get_var_genes() - Get highly variable genes
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helpModal() - Help modal
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helpButtonUI()helpButtonServer() - Help button module
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install_cascade() - Create cascade python environment
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linePlotUI()linePlotServer() - Line plot module
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make_example_seurat_object() - Create a tiny example Seurat object
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markerPlotUI()markerPlotServer() - Marker plots module
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markerTableGeneralUI()markerTableGeneralServer() - Generalized marker table module
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markerTableUI()markerTableServer() - Marker tables module
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read_access_yaml() - Read access yaml with user groups and data areas
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run_cascade() - Cascade
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sanitize_colnames() - Sanitize strings
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save_access_yaml() - Save access yaml to file
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scatterPlotUI()scatterPlotServer() - Gene-gene scatter plot module
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selectionUI()selectionServer() - Download selection module
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settingsUI()settingsServer() - Settings module
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spatialCoexpressionPlotUI()spatialCoexpressionPlotServer() - Spatial coexpression plot module
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spatialFeaturePlotUI()spatialFeaturePlotServer() - Spatial feature plot module
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subsetServer() - Filter settings module server
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subsetUI() - Filter settings module ui
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summaryUI()summaryServer() - Summary tab module
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umap_ly() - Interactive umap plot
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violin2() - Violin plot
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violin_ly() - Interactive violin plot
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violinUI()violinServer() - Violin plot module