Index

_

__init__() (BaseGraphBuilder method) (ContactGraphBuilder method) (Interactions method) (KNNGraphBuilder method) (RadiusGraphBuilder method) (RipleysK method)

A

abundance() (in module spatialHeterogeneity.metrics.heterogeneity.metrics)

add2uns() (in module spatialHeterogeneity.neighborhood.estimators)

B

BaseGraphBuilder (class in spatialHeterogeneity.graph_builder.base_graph_builder)

build_graph() (in module spatialHeterogeneity.graph_builder.graphBuilder)

C

channel() (in module spatialHeterogeneity.plotting.visualization) colormap() (in module spatialHeterogeneity.plotting.utils)

compute_metrics() (in module spatialHeterogeneity.utils.tools.metric) ContactGraphBuilder (class in spatialHeterogeneity.graph_builder.contact_graph_builder) csr_deviation() (RipleysK method)

D

ddoc() (in module spatialHeterogeneity.utils.docs.default_docs)

df2node_attr() (in module spatialHeterogeneity.utils.tools.graph) dilation() (in module spatialHeterogeneity.graph_builder.contact_graph_builder)

E

extract_centroids() (in module spatialHeterogeneity.preprocessing.preprocess) extract_image_properties() (in module spatialHeterogeneity.preprocessing.preprocess)

extract_mask_expr_feat() (in module spatialHeterogeneity.utils.tools.image) extract_mask_morph_feat() (in module spatialHeterogeneity.utils.tools.image) extract_metric_results() (in module spatialHeterogeneity.utils.tools.metric)

F

fit() (Interactions method) (RipleysK method)

from_mask() (BaseGraphBuilder class method)

G

generate_h0() (Interactions method) get_cmap() (in module spatialHeterogeneity.plotting.visualization) get_edge_interactions() (in module spatialHeterogeneity.neighborhood.utils) get_group_feature() (in module spatialHeterogeneity.utils.tools.metric)

get_interaction_score() (in module spatialHeterogeneity.neighborhood.utils) get_layout() (in module spatialHeterogeneity.plotting.utils) get_node_interactions() (in module spatialHeterogeneity.neighborhood.utils) get_shape_outline() (in module spatialHeterogeneity.utils.tools.image)

H

hill_number() (in module spatialHeterogeneity.metrics.heterogeneity.metrics)

I

imc() (in module spatialHeterogeneity.dataset.datasets) infiltration() (in module spatialHeterogeneity.neighborhood.estimators) (in module spatialHeterogeneity.plotting.visualization) Interactions (class in spatialHeterogeneity.neighborhood.base_estimators) interactions() (in module spatialHeterogeneity.neighborhood.estimators) (in module spatialHeterogeneity.plotting.visualization)

is_categorical() (in module spatialHeterogeneity.utils.general) is_fitted() (in module spatialHeterogeneity.utils.general) is_numeric() (in module spatialHeterogeneity.utils.general) is_seq() (in module spatialHeterogeneity.utils.general)

K

KNNGraphBuilder (class in spatialHeterogeneity.graph_builder.knn_graph_builder)

M

make_cbar() (in module spatialHeterogeneity.plotting.utils) make_iterable() (in module spatialHeterogeneity.utils.general) masks() (in module spatialHeterogeneity.graph_builder.tests.test_graph_module) mibi() (in module spatialHeterogeneity.dataset.datasets) modularity() (in module spatialHeterogeneity.metrics.graph.graph) module spatialHeterogeneity spatialHeterogeneity.dataset spatialHeterogeneity.dataset.datasets spatialHeterogeneity.graph_builder spatialHeterogeneity.graph_builder.base_graph_builder spatialHeterogeneity.graph_builder.constants spatialHeterogeneity.graph_builder.contact_graph_builder spatialHeterogeneity.graph_builder.graphBuilder spatialHeterogeneity.graph_builder.knn_graph_builder spatialHeterogeneity.graph_builder.mappings spatialHeterogeneity.graph_builder.radius_graph_builder spatialHeterogeneity.graph_builder.tests spatialHeterogeneity.graph_builder.tests.test_graph_module spatialHeterogeneity.metrics spatialHeterogeneity.metrics.graph spatialHeterogeneity.metrics.graph.graph spatialHeterogeneity.metrics.heterogeneity spatialHeterogeneity.metrics.heterogeneity.base_metrics spatialHeterogeneity.metrics.heterogeneity.metrics spatialHeterogeneity.metrics.tests spatialHeterogeneity.metrics.tests.test_base_metrics spatialHeterogeneity.metrics.utils spatialHeterogeneity.neighborhood spatialHeterogeneity.neighborhood.base_estimators spatialHeterogeneity.neighborhood.estimators spatialHeterogeneity.neighborhood.utils spatialHeterogeneity.plotting spatialHeterogeneity.plotting.utils spatialHeterogeneity.plotting.visualization spatialHeterogeneity.preprocessing spatialHeterogeneity.preprocessing.preprocess spatialHeterogeneity.utils spatialHeterogeneity.utils.docs spatialHeterogeneity.utils.docs.default_docs spatialHeterogeneity.utils.general spatialHeterogeneity.utils.tools spatialHeterogeneity.utils.tools.graph spatialHeterogeneity.utils.tools.image spatialHeterogeneity.utils.tools.metric

N

napari_viewer() (in module spatialHeterogeneity.plotting.visualization)

ndata() (in module spatialHeterogeneity.graph_builder.tests.test_graph_module) node_attrs2df() (in module spatialHeterogeneity.utils.tools.graph)

O

order() (in module spatialHeterogeneity.utils.general)

P

permute_labels() (in module spatialHeterogeneity.neighborhood.utils) permute_labels_deprecate() (in module spatialHeterogeneity.neighborhood.utils)

predict() (Interactions method) (RipleysK method)

Q

quadratic_entropy() (in module spatialHeterogeneity.metrics.heterogeneity.metrics)

R

RadiusGraphBuilder (class in spatialHeterogeneity.graph_builder.radius_graph_builder) renyi_entropy() (in module spatialHeterogeneity.metrics.heterogeneity.metrics) richness() (in module spatialHeterogeneity.metrics.heterogeneity.metrics)

RipleysK (class in spatialHeterogeneity.neighborhood.base_estimators) ripleysK() (in module spatialHeterogeneity.neighborhood.estimators) (in module spatialHeterogeneity.plotting.visualization)

S

savefig() (in module spatialHeterogeneity.plotting.utils) shannon() (in module spatialHeterogeneity.metrics.heterogeneity.metrics) simpson() (in module spatialHeterogeneity.metrics.heterogeneity.metrics) spatial() (in module spatialHeterogeneity.plotting.visualization) spatialHeterogeneity module spatialHeterogeneity.dataset module spatialHeterogeneity.dataset.datasets module spatialHeterogeneity.graph_builder module spatialHeterogeneity.graph_builder.base_graph_builder module spatialHeterogeneity.graph_builder.constants module spatialHeterogeneity.graph_builder.contact_graph_builder module spatialHeterogeneity.graph_builder.graphBuilder module spatialHeterogeneity.graph_builder.knn_graph_builder module spatialHeterogeneity.graph_builder.mappings module spatialHeterogeneity.graph_builder.radius_graph_builder module spatialHeterogeneity.graph_builder.tests module spatialHeterogeneity.graph_builder.tests.test_graph_module module spatialHeterogeneity.metrics module spatialHeterogeneity.metrics.graph module spatialHeterogeneity.metrics.graph.graph module spatialHeterogeneity.metrics.heterogeneity module spatialHeterogeneity.metrics.heterogeneity.base_metrics module spatialHeterogeneity.metrics.heterogeneity.metrics module

spatialHeterogeneity.metrics.tests module spatialHeterogeneity.metrics.tests.test_base_metrics module spatialHeterogeneity.metrics.utils module spatialHeterogeneity.neighborhood module spatialHeterogeneity.neighborhood.base_estimators module spatialHeterogeneity.neighborhood.estimators module spatialHeterogeneity.neighborhood.utils module spatialHeterogeneity.plotting module spatialHeterogeneity.plotting.utils module spatialHeterogeneity.plotting.visualization module spatialHeterogeneity.preprocessing module spatialHeterogeneity.preprocessing.preprocess module spatialHeterogeneity.utils module spatialHeterogeneity.utils.docs module spatialHeterogeneity.utils.docs.default_docs module spatialHeterogeneity.utils.general module spatialHeterogeneity.utils.tools module spatialHeterogeneity.utils.tools.graph module spatialHeterogeneity.utils.tools.image module spatialHeterogeneity.utils.tools.metric module

T

test_abundance() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_contact_graph_builder() (in module spatialHeterogeneity.graph_builder.tests.test_graph_module) test_gini_simpson() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_hill_number() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_knn_graph_builder() (in module spatialHeterogeneity.graph_builder.tests.test_graph_module) test_quadratic_entropy() (in module spatialHeterogeneity.metrics.tests.test_base_metrics)

test_radius_graph_bulder() (in module spatialHeterogeneity.graph_builder.tests.test_graph_module) test_renyi() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_richness() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_shannon() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_shannon_evenness() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_simpson() (in module spatialHeterogeneity.metrics.tests.test_base_metrics) test_simpson_evenness() (in module spatialHeterogeneity.metrics.tests.test_base_metrics)

V

VALID_MODES (Interactions attribute)

VALID_PREDICTION_TYPES (Interactions attribute)