Index

A

abm_initialization_collection.coordinate module abm_initialization_collection.coordinate.filter_coordinate_bounds module abm_initialization_collection.coordinate.make_grid_coordinates module abm_initialization_collection.image module abm_initialization_collection.image.create_voronoi_image module abm_initialization_collection.image.get_image_bounds module abm_initialization_collection.image.plot_contact_sheet module abm_initialization_collection.image.select_fov_images module

abm_initialization_collection.sample module abm_initialization_collection.sample.exclude_selected_ids module abm_initialization_collection.sample.get_image_samples module abm_initialization_collection.sample.get_sample_indices module abm_initialization_collection.sample.include_selected_ids module abm_initialization_collection.sample.remove_edge_regions module abm_initialization_collection.sample.remove_unconnected_regions module abm_initialization_collection.sample.scale_sample_coordinates module

C

calculate_voronoi_array() (in module abm_initialization_collection.image.create_voronoi_image) convert_to_dataframe() (in module abm_initialization_collection.sample.remove_unconnected_regions)

convert_to_integer_array() (in module abm_initialization_collection.sample.remove_unconnected_regions) create_boundary_mask() (in module abm_initialization_collection.image.create_voronoi_image) create_voronoi_image() (in module abm_initialization_collection.image.create_voronoi_image)

E

exclude_selected_ids() (in module abm_initialization_collection.sample.exclude_selected_ids)

F

filter_coordinate_bounds() (in module abm_initialization_collection.coordinate.filter_coordinate_bounds)

find_edge_ids() (in module abm_initialization_collection.sample.remove_edge_regions)

G

get_array_slices() (in module abm_initialization_collection.image.create_voronoi_image) get_hex_sample_indices() (in module abm_initialization_collection.sample.get_sample_indices) get_image_bounds() (in module abm_initialization_collection.image.get_image_bounds) get_image_samples() (in module abm_initialization_collection.sample.get_image_samples) get_mask_bounds() (in module abm_initialization_collection.image.create_voronoi_image)

get_minimum_distance() (in module abm_initialization_collection.sample.remove_unconnected_regions) get_rect_sample_indices() (in module abm_initialization_collection.sample.get_sample_indices) get_sample_indices() (in module abm_initialization_collection.sample.get_sample_indices) get_sample_maximums() (in module abm_initialization_collection.sample.remove_unconnected_regions) get_sample_minimums() (in module abm_initialization_collection.sample.remove_unconnected_regions)

I

include_selected_ids() (in module abm_initialization_collection.sample.include_selected_ids)

M

make_grid_coordinates() (in module abm_initialization_collection.coordinate.make_grid_coordinates) make_hex_grid_coordinates() (in module abm_initialization_collection.coordinate.make_grid_coordinates) make_rect_grid_coordinates() (in module abm_initialization_collection.coordinate.make_grid_coordinates) make_subplots() (in module abm_initialization_collection.image.plot_contact_sheet) module abm_initialization_collection.coordinate abm_initialization_collection.coordinate.filter_coordinate_bounds abm_initialization_collection.coordinate.make_grid_coordinates abm_initialization_collection.image abm_initialization_collection.image.create_voronoi_image abm_initialization_collection.image.get_image_bounds abm_initialization_collection.image.plot_contact_sheet abm_initialization_collection.image.select_fov_images abm_initialization_collection.sample abm_initialization_collection.sample.exclude_selected_ids abm_initialization_collection.sample.get_image_samples abm_initialization_collection.sample.get_sample_indices abm_initialization_collection.sample.include_selected_ids abm_initialization_collection.sample.remove_edge_regions abm_initialization_collection.sample.remove_unconnected_regions abm_initialization_collection.sample.scale_sample_coordinates

P

plot_contact_sheet() (in module abm_initialization_collection.image.plot_contact_sheet)

R

remove_edge_regions() (in module abm_initialization_collection.sample.remove_edge_regions) remove_unconnected_by_connectivity() (in module abm_initialization_collection.sample.remove_unconnected_regions)

remove_unconnected_by_distance() (in module abm_initialization_collection.sample.remove_unconnected_regions) remove_unconnected_regions() (in module abm_initialization_collection.sample.remove_unconnected_regions)

S

scale_sample_coordinates() (in module abm_initialization_collection.sample.scale_sample_coordinates) select_axes() (in module abm_initialization_collection.image.plot_contact_sheet)

select_fov_images() (in module abm_initialization_collection.image.select_fov_images) separate_rows_cols() (in module abm_initialization_collection.image.plot_contact_sheet)