ovrlpy

Submodules

`SCALEBAR_PARAMS`	Default scalebar parameters
`UMAP_2D_PARAMS`	Default 2D-UMAP parameters
`UMAP_RGB_PARAMS`	Default RGB-UMAP parameters

A class to visualize spatial transcriptomics data.

`compute_VSI`(df, pca_components[, min_expression, ...])	Calculate the vertical signal integrity (VSI).
`detect_doublets`(integrity_map, signal_map[, ...])	This function is used to find individual low peaks of signal integrity in the tissue
`get_pseudocell_locations`(df[, genes, min_distance, ...])	Returns a list of local maxima in a kde of the data frame,
`plot_region_of_interest`(x, y, coordinate_df, ...[, ...])	Plot a comprehensive overview of a zoomed-in region of interest.
`plot_signal_integrity`(integrity, signal[, ...])	Plots the determined signal integrity of the tissue sample in a signal integrity map.
`pre_process_coordinates`(coordinate_df[, grid_size, ...])	Runs the pre-processing routine of the coordinate dataframe.
`run`(df[, n_expected_celltypes, cell_diameter, ...])	This is a wrapper function that computes the integrity map for a given spatial
`sample_expression_at_xy`(df, sampling_points_x, ...[, ...])	Returns a matrix of gene expression vectors at each local maximum.