Index

_

__init__() (CellEmbedding method) (GeneEmbedding method) (GeneVector method) (GeneVectorDataset method) (GeneVectorModel method)

A

aggr_mean() (in module genevector._aggregation)

average_vector_results() (GeneEmbedding static method)

B

batch_correct() (CellEmbedding method)

C

cell_distance() (CellEmbedding method) CellEmbedding (class in genevector.embedding) clear_cache() (in module genevector.cache) cluster() (CellEmbedding method) compare_classification() (CellEmbedding method) compare_expression_to_similarity() (CellEmbedding method)

compute_cache_key() (in module genevector.cache) compute_mi_gpu() (in module genevector.metrics) compute_mi_numba() (in module genevector.metrics) compute_mi_rust() (in module genevector.metrics) compute_mi_vectorized() (in module genevector.metrics) compute_similarities() (GeneEmbedding method) create_inputs_outputs() (GeneVectorDataset method)

D

discretize_genes() (in module genevector.metrics)

E

entmax_15() (CellEmbedding static method)

F

forward() (GeneVectorModel method)

G

GeneEmbedding (class in genevector.embedding) generate_network() (GeneEmbedding method) generate_vector() (GeneEmbedding method) generate_weighted_vector() (GeneEmbedding method) GeneVector (class in genevector.model) genevector._aggregation module genevector._graph_targets module genevector.cache module genevector.data module genevector.embedding module genevector.metrics module

genevector.model module GeneVectorDataset (class in genevector.data) GeneVectorModel (class in genevector.model) get_adata() (CellEmbedding method) (GeneEmbedding method) get_aggregation() (in module genevector._aggregation) get_batches() (GeneVectorDataset method) get_cache_path() (in module genevector.cache) get_expression() (CellEmbedding static method) get_gene_entropy() (GeneVectorDataset static method) get_inverse_predictive_genes() (CellEmbedding method) get_metagenes() (GeneEmbedding method) get_predictive_genes() (CellEmbedding method) get_similar_genes() (GeneEmbedding method) get_target_function() (in module genevector.metrics) get_vector() (GeneEmbedding method)

L

load() (GeneVector method) load_scores() (in module genevector.cache)

load_target_scores() (GeneVectorDataset method) load_targets() (GeneVectorDataset method)

M

module genevector._aggregation genevector._graph_targets genevector.cache genevector.data genevector.embedding genevector.metrics genevector.model

module_score_r2() (CellEmbedding method)

N

normalized_exponential_vector() (CellEmbedding static method)

normalized_marker_expression() (CellEmbedding method)

P

phenotype_probability() (CellEmbedding method) phenotype_qc() (CellEmbedding method) plot() (GeneVector method) plot_confusion_matrix() (CellEmbedding static method)

plot_metagene() (GeneEmbedding method) plot_metagenes_scores() (GeneEmbedding method) plot_probabilities() (CellEmbedding method) plot_similarities() (GeneEmbedding method)

Q

quality_control() (GeneVectorDataset static method)

R

read_embedding() (GeneEmbedding method) read_vector() (GeneEmbedding static method)

register_aggregation() (in module genevector._aggregation) register_target() (in module genevector.metrics)

S

save() (GeneVector method) save_embedding() (GeneVectorModel method)

save_scores() (in module genevector.cache) save_target_scores() (GeneVectorDataset method) score_metagenes() (GeneEmbedding method)

T

target_cosine() (in module genevector.metrics) target_graph_xcorr() (in module genevector._graph_targets) target_jaccard() (in module genevector.metrics)

target_mi() (in module genevector.metrics) target_pearson() (in module genevector.metrics) target_spearman() (in module genevector.metrics) train() (GeneVector method)