Index

_

_estimator_type (microfactual.models.classifiers.MicrobiomeClassifier attribute) (microfactual.models.MicrobiomeClassifier attribute)

A

abundance (microfactual.core.dataset.MicrobiomeDataset attribute) (microfactual.core.MicrobiomeDataset attribute) AbundanceFilter (class in microfactual.preprocessing) (class in microfactual.preprocessing.transforms)

ALGORITHMS (microfactual.models.classifiers.MicrobiomeClassifier attribute) (microfactual.models.MicrobiomeClassifier attribute)

B

BaseExplainer (class in microfactual.explainability) (class in microfactual.explainability.base)

C

changes() (microfactual.explainability.CounterfactualResult method) (microfactual.explainability.result.CounterfactualResult method) clr_transform() (microfactual.core.dataset.MicrobiomeDataset method) (microfactual.core.MicrobiomeDataset method) CLRTransform (class in microfactual.preprocessing) (class in microfactual.preprocessing.transforms)

counterfactual_concordance() (in module microfactual.explainability) (in module microfactual.explainability.plausibility) counterfactual_importance() (in module microfactual.explainability) (in module microfactual.explainability.counterfactuals) CounterfactualResult (class in microfactual.explainability) (class in microfactual.explainability.result)

D

DiCEExplainer (class in microfactual.explainability) (class in microfactual.explainability.counterfactuals)

E

explain() (microfactual.explainability.base.BaseExplainer method) (microfactual.explainability.BaseExplainer method) (microfactual.explainability.counterfactuals.DiCEExplainer method) (microfactual.explainability.DiCEExplainer method)

explain_counterfactual() (in module microfactual.explainability) (in module microfactual.explainability.counterfactuals) explore() (in module microfactual.visualization)

F

feature_importances_ (microfactual.models.classifiers.MicrobiomeClassifier property) (microfactual.models.MicrobiomeClassifier property) feature_names (microfactual.core.dataset.MicrobiomeDataset property) (microfactual.core.MicrobiomeDataset property) filter_features() (microfactual.core.dataset.MicrobiomeDataset method) (microfactual.core.MicrobiomeDataset method) fit() (microfactual.models.classifiers.MicrobiomeClassifier method) (microfactual.models.MicrobiomeClassifier method) (microfactual.preprocessing.AbundanceFilter method) (microfactual.preprocessing.CLRTransform method) (microfactual.preprocessing.PrevalenceFilter method) (microfactual.preprocessing.transforms.AbundanceFilter method) (microfactual.preprocessing.transforms.CLRTransform method) (microfactual.preprocessing.transforms.PrevalenceFilter method)

from_files() (microfactual.core.dataset.MicrobiomeDataset class method) (microfactual.core.MicrobiomeDataset class method)

G

get_feature_names_out() (microfactual.preprocessing.AbundanceFilter method) (microfactual.preprocessing.CLRTransform method) (microfactual.preprocessing.PrevalenceFilter method) (microfactual.preprocessing.transforms.AbundanceFilter method) (microfactual.preprocessing.transforms.CLRTransform method) (microfactual.preprocessing.transforms.PrevalenceFilter method)

get_info() (microfactual.core.dataset.MicrobiomeDataset method) (microfactual.core.MicrobiomeDataset method) get_params() (microfactual.models.classifiers.MicrobiomeClassifier method) (microfactual.models.MicrobiomeClassifier method)

M

metadata (microfactual.core.dataset.MicrobiomeDataset attribute) (microfactual.core.MicrobiomeDataset attribute) MicrobiomeClassifier (class in microfactual.models) (class in microfactual.models.classifiers) MicrobiomeDataset (class in microfactual.core) (class in microfactual.core.dataset) microfactual.core module microfactual.core.dataset module microfactual.explainability module microfactual.explainability.base module microfactual.explainability.counterfactuals module microfactual.explainability.plausibility module microfactual.explainability.result module microfactual.models module microfactual.models.classifiers module

microfactual.preprocessing module microfactual.preprocessing.transforms module microfactual.visualization module microfactual.visualization.counterfactual_plots module module microfactual.core microfactual.core.dataset microfactual.explainability microfactual.explainability.base microfactual.explainability.counterfactuals microfactual.explainability.plausibility microfactual.explainability.result microfactual.models microfactual.models.classifiers microfactual.preprocessing microfactual.preprocessing.transforms microfactual.visualization microfactual.visualization.counterfactual_plots

N

n_changes (microfactual.explainability.CounterfactualResult property) (microfactual.explainability.result.CounterfactualResult property)

n_counterfactuals (microfactual.explainability.CounterfactualResult property) (microfactual.explainability.result.CounterfactualResult property)

O

original_prediction (microfactual.explainability.CounterfactualResult property) (microfactual.explainability.result.CounterfactualResult property)

P

plausible_range() (in module microfactual.explainability) (in module microfactual.explainability.plausibility) plot_abundance_histogram() (in module microfactual.visualization) plot_confusion_matrix() (in module microfactual.visualization) plot_counterfactual_heatmap() (in module microfactual.visualization) (in module microfactual.visualization.counterfactual_plots) plot_feature_importance() (in module microfactual.visualization) plot_prevalence_abundance() (in module microfactual.visualization)

plot_prevalence_histogram() (in module microfactual.visualization) plot_roc() (in module microfactual.visualization) predict() (microfactual.models.classifiers.MicrobiomeClassifier method) (microfactual.models.MicrobiomeClassifier method) predict_proba() (microfactual.models.classifiers.MicrobiomeClassifier method) (microfactual.models.MicrobiomeClassifier method) PrevalenceFilter (class in microfactual.preprocessing) (class in microfactual.preprocessing.transforms)

R

reset_preprocessing() (microfactual.core.dataset.MicrobiomeDataset method) (microfactual.core.MicrobiomeDataset method)

S

sample_column (microfactual.core.dataset.MicrobiomeDataset attribute) (microfactual.core.MicrobiomeDataset attribute) sample_names (microfactual.core.dataset.MicrobiomeDataset property) (microfactual.core.MicrobiomeDataset property) set_params() (microfactual.models.classifiers.MicrobiomeClassifier method) (microfactual.models.MicrobiomeClassifier method)

set_score_request() (microfactual.models.classifiers.MicrobiomeClassifier method) (microfactual.models.MicrobiomeClassifier method) sparsify_counterfactual() (in module microfactual.explainability.result) summary() (microfactual.explainability.CounterfactualResult method) (microfactual.explainability.result.CounterfactualResult method)

T

target_column (microfactual.core.dataset.MicrobiomeDataset attribute) (microfactual.core.MicrobiomeDataset attribute) target_names (microfactual.core.dataset.MicrobiomeDataset property) (microfactual.core.MicrobiomeDataset property) transform() (microfactual.preprocessing.AbundanceFilter method) (microfactual.preprocessing.CLRTransform method) (microfactual.preprocessing.PrevalenceFilter method) (microfactual.preprocessing.transforms.AbundanceFilter method) (microfactual.preprocessing.transforms.CLRTransform method) (microfactual.preprocessing.transforms.PrevalenceFilter method)

V

validity (microfactual.explainability.CounterfactualResult property) (microfactual.explainability.result.CounterfactualResult property)

visualize_as_dataframe() (microfactual.explainability.CounterfactualResult method) (microfactual.explainability.result.CounterfactualResult method)

X

X (microfactual.core.dataset.MicrobiomeDataset property) (microfactual.core.MicrobiomeDataset property)

Y

y (microfactual.core.dataset.MicrobiomeDataset property) (microfactual.core.MicrobiomeDataset property)