Index

C

calculate_gearys_C() (in module simspace.spatial) calculate_interaction_score() (in module simspace.spatial) calculate_local_entropy() (in module simspace.spatial) calculate_local_morans_I() (in module simspace.spatial) calculate_morans_I() (in module simspace.spatial) compute_variogram() (in module simspace.spatial) convolve() (in module simspace.util)

create_ellipse() (in module simspace.niche) create_niche() (simspace.core.SimSpace method) create_niche3D() (simspace.core.SimSpace method) create_omics() (simspace.core.SimSpace method) create_rectangle() (in module simspace.niche) create_ring() (in module simspace.niche) create_vessel() (in module simspace.niche)

D

density_sampler() (simspace.core.SimSpace method)

F

fit_scdesign() (simspace.core.SimSpace method)

fit_srtsim() (simspace.core.SimSpace method)

G

generate_offsets() (in module simspace.spatial) generate_offsets3D() (in module simspace.spatial) generate_random_parameters() (in module simspace.util)

get_custom_neighbors() (simspace.core.SimSpace method) get_custom_neighbors3D() (simspace.core.SimSpace method) gibbs_sampler() (simspace.core.SimSpace method) gibbs_sampler3D() (simspace.core.SimSpace method)

I

initialize() (simspace.core.SimSpace method) initialize3D() (simspace.core.SimSpace method)

integrate_gearys_C() (in module simspace.spatial) integrate_morans_I() (in module simspace.spatial) integrate_variogram() (in module simspace.spatial)

L

load_params() (in module simspace.util)

M

manual_niche() (simspace.core.SimSpace method) module simspace simspace.core simspace.niche simspace.omics simspace.optimize simspace.plot simspace.spatial simspace.util

moran_I() (simspace.core.SimSpace method)

P

perturbation() (simspace.core.SimSpace method) perturbation3D() (simspace.core.SimSpace method) plot() (simspace.core.SimSpace method) plot3D() (simspace.core.SimSpace method) plot_gene() (in module simspace.plot)

plot_grid() (simspace.core.SimSpace method) plot_local_entropy() (in module simspace.spatial) plot_local_morans_I() (in module simspace.spatial) plot_niche() (simspace.core.SimSpace method) print() (simspace.core.SimSpace method)

R

run_splatter() (in module simspace.omics)

S

save() (simspace.core.SimSpace method) save_params() (in module simspace.util) scdesign_fit() (in module simspace.omics) sim_from_json() (in module simspace.util) sim_from_params() (in module simspace.util) simOmics() (in module simspace.omics) simOmicsMeta() (in module simspace.omics) simspace module SimSpace (class in simspace.core) simspace.core module simspace.niche module simspace.omics module

simspace.optimize module simspace.plot module simspace.spatial module simspace.util module simSpatialOmics() (in module simspace.omics) spatial_fit() (in module simspace.optimize) spatial_pie() (in module simspace.plot) spatial_stat() (in module simspace.spatial) splatter_fit() (in module simspace.omics) srtsim_fit() (in module simspace.omics)

U

update_seed() (simspace.core.SimSpace method)