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| analyse_individuals | Quick analysis and visualization of the individuals/annotations/rows (e.g. Tss, gene) from integrated Assay. |
| analyse_integrated_individuals | Quick analysis and visualization of the individuals/annotations/rows (e.g. Tss, gene) |
| analyse_integrated_variables | Quick analysis and visualization of the integrated Assays by integrate() function. |
| analyse_variables | Quick analysis and visualization of the integrated Assays by integrate() function. |
| chart_correlation | Pairwise correlation, scatter plot and histogram on selected groups. |
| cluster | Cluster data points |
| cluster_boxplot | Comparison of clusters by boxplot |
| cluster_parameters | Detection of algorithm and number of clusters |
| create_group | Subsets an Assay dataframe into smaller groups |
| descriptor | Distribution of Assays as percentage of cell lines |
| extract | extraction of projected cooordinates from "PCA" object. |
| extract_assay | Data extraction from "MultiAssayExperiment" object |
| integrate_pca | Integration of multiple Assays into linear combinations by PCA. |
| integrate_variables | Integration of an experiment/ Assay done on many Cell lines/ time points into linear combinations by PCA. |
| intersect | support function of prepareDataset |
| merge_cells | Storage of intersected factors from multiple cell types as columns into a dataframe |
| plot_density | Visualization of Density of various groups on Principal components |
| plot_density_3D | Visualization of 3D Density of various groups on Principal components |
| plot_integrated_density | Visualization of Density of various groups on Principal components of integrated assays |
| plot_integrated_density_3D | Visualization of 3D Density of various groups on Principal components of multiple Assays |
| prepare_dataset | Intersects and merge data from multiple experiments into a dataframe |