Index

_

__getitem__() (scribe.svi.ScribeSVIResults method)

__post_init__() (scribe.svi.ScribeSVIResults method)

A

arg_constraints (scribe.stats.BetaPrime attribute)

assignment_entropy_map() (scribe.svi.ScribeSVIResults method)

B

BetaPrime (class in scribe.stats)

black (scribe.viz.Colors attribute) blue (scribe.viz.Colors attribute)

C

cell_type_probabilities() (scribe.svi.ScribeSVIResults method) cell_type_probabilities_map() (scribe.svi.ScribeSVIResults method) Colors (class in scribe.viz) compute_ecdf_credible_regions() (in module scribe.stats) compute_ecdf_percentiles() (in module scribe.stats)

compute_histogram_credible_regions() (in module scribe.stats) compute_histogram_percentiles() (in module scribe.stats) concentration0 (scribe.stats.BetaPrime property) concentration1 (scribe.stats.BetaPrime property) create_results() (scribe.svi.SVIResultsFactory static method)

D

dark_black (scribe.viz.Colors attribute) dark_blue (scribe.viz.Colors attribute) dark_gold (scribe.viz.Colors attribute)

dark_green (scribe.viz.Colors attribute) dark_purple (scribe.viz.Colors attribute) dark_red (scribe.viz.Colors attribute)

F

fit_dirichlet_minka() (in module scribe.stats)

fit_dirichlet_mle() (in module scribe.stats) from_anndata() (scribe.svi.ScribeSVIResults class method)

G

generate_ppc_samples() (in module scribe.sampling) generate_predictive_samples() (in module scribe.sampling) generate_prior_predictive_samples() (in module scribe.sampling) get_component() (scribe.svi.ScribeSVIResults method) get_distributions() (scribe.svi.ScribeSVIResults method) get_map() (scribe.svi.ScribeSVIResults method)

get_posterior_samples() (scribe.svi.ScribeSVIResults method) get_ppc_samples() (scribe.svi.ScribeSVIResults method) get_predictive_samples() (scribe.svi.ScribeSVIResults method) git_root() (in module scribe.utils) gold (scribe.viz.Colors attribute) green (scribe.viz.Colors attribute)

H

has_rsample (scribe.stats.BetaPrime attribute)

L

light_black (scribe.viz.Colors attribute) light_blue (scribe.viz.Colors attribute) light_gold (scribe.viz.Colors attribute) light_green (scribe.viz.Colors attribute) light_purple (scribe.viz.Colors attribute)

light_red (scribe.viz.Colors attribute) log_likelihood() (scribe.svi.ScribeSVIResults method) log_likelihood_map() (scribe.svi.ScribeSVIResults method) log_prob() (scribe.stats.BetaPrime method) loss_history (scribe.svi.ScribeSVIResults attribute), [1]

M

matplotlib_style() (in module scribe.viz) mean (scribe.stats.BetaPrime property) mixture_component_entropy() (scribe.svi.ScribeSVIResults method) mode (scribe.stats.BetaPrime property) model_config (scribe.svi.ScribeSVIResults attribute), [1] model_type (scribe.svi.ScribeSVIResults attribute), [1]

module scribe.sampling scribe.stats scribe.svi scribe.utils scribe.viz

N

n_cells (scribe.svi.ScribeSVIResults attribute), [1] n_components (scribe.svi.ScribeSVIResults attribute), [1] n_genes (scribe.svi.ScribeSVIResults attribute), [1]

n_obs (scribe.svi.ScribeSVIResults attribute), [1] n_vars (scribe.svi.ScribeSVIResults attribute), [1] normalize_counts() (scribe.svi.ScribeSVIResults method) numpyro_to_scipy() (in module scribe.utils)

O

obs (scribe.svi.ScribeSVIResults attribute), [1]

P

pale_black (scribe.viz.Colors attribute) pale_blue (scribe.viz.Colors attribute) pale_gold (scribe.viz.Colors attribute) pale_green (scribe.viz.Colors attribute) pale_purple (scribe.viz.Colors attribute) pale_red (scribe.viz.Colors attribute) params (scribe.svi.ScribeSVIResults attribute), [1]

plot_ecdf_credible_regions_stairs() (in module scribe.viz) plot_histogram_credible_regions() (in module scribe.viz) plot_histogram_credible_regions_stairs() (in module scribe.viz) plot_posterior() (in module scribe.viz) posterior_samples (scribe.svi.ScribeSVIResults attribute), [1] predictive_samples (scribe.svi.ScribeSVIResults attribute), [1] prior_params (scribe.svi.ScribeSVIResults attribute), [1] purple (scribe.viz.Colors attribute)

R

red (scribe.viz.Colors attribute)

run_inference() (scribe.svi.SVIInferenceEngine static method)

S

sample() (scribe.stats.BetaPrime method) sample_dirichlet_from_parameters() (in module scribe.stats) sample_variational_posterior() (in module scribe.sampling) scribe.sampling module scribe.stats module scribe.svi module

scribe.utils module scribe.viz module ScribeSVIResults (class in scribe.svi) support (scribe.stats.BetaPrime attribute) SVIInferenceEngine (class in scribe.svi) SVIResultsFactory (class in scribe.svi)

U

uns (scribe.svi.ScribeSVIResults attribute), [1]

use_cpu() (in module scribe.utils)

V

var (scribe.svi.ScribeSVIResults attribute), [1]

variance (scribe.stats.BetaPrime property)