scvi.model.SCANVI
=================

.. currentmodule:: scvi.model

.. add toctree option to make autodoc generate the pages

.. autoclass:: SCANVI



Attributes table
~~~~~~~~~~~~~~~~~~

.. autosummary::

    ~SCANVI.adata
    ~SCANVI.adata_manager
    ~SCANVI.device
    ~SCANVI.get_normalized_function_name
    ~SCANVI.history
    ~SCANVI.is_trained
    ~SCANVI.minified_data_type
    ~SCANVI.registry
    ~SCANVI.run_id
    ~SCANVI.run_name
    ~SCANVI.summary_string
    ~SCANVI.test_indices
    ~SCANVI.train_indices
    ~SCANVI.validation_indices





Methods table
~~~~~~~~~~~~~

.. autosummary::

    ~SCANVI.convert_legacy_save
    ~SCANVI.data_registry
    ~SCANVI.deregister_manager
    ~SCANVI.differential_abundance
    ~SCANVI.differential_expression
    ~SCANVI.from_scvi_model
    ~SCANVI.get_aggregated_posterior
    ~SCANVI.get_anndata_manager
    ~SCANVI.get_elbo
    ~SCANVI.get_feature_correlation_matrix
    ~SCANVI.get_from_registry
    ~SCANVI.get_importance_weights
    ~SCANVI.get_latent_library_size
    ~SCANVI.get_latent_representation
    ~SCANVI.get_likelihood_parameters
    ~SCANVI.get_marginal_ll
    ~SCANVI.get_normalized_expression
    ~SCANVI.get_ranked_features
    ~SCANVI.get_reconstruction_error
    ~SCANVI.get_setup_arg
    ~SCANVI.get_state_registry
    ~SCANVI.get_var_names
    ~SCANVI.load
    ~SCANVI.load_query_data
    ~SCANVI.load_registry
    ~SCANVI.minify_adata
    ~SCANVI.posterior_predictive_sample
    ~SCANVI.predict
    ~SCANVI.prepare_query_anndata
    ~SCANVI.prepare_query_mudata
    ~SCANVI.register_manager
    ~SCANVI.save
    ~SCANVI.setup_annbatch
    ~SCANVI.setup_anndata
    ~SCANVI.shap_adata_predict
    ~SCANVI.shap_predict
    ~SCANVI.to_device
    ~SCANVI.train
    ~SCANVI.transfer_fields
    ~SCANVI.update_setup_method_args
    ~SCANVI.view_anndata_setup
    ~SCANVI.view_registry
    ~SCANVI.view_setup_args
    ~SCANVI.view_setup_method_args





Attributes
~~~~~~~~~~~



.. autoattribute:: SCANVI.adata

.. autoattribute:: SCANVI.adata_manager

.. autoattribute:: SCANVI.device

.. autoattribute:: SCANVI.get_normalized_function_name

.. autoattribute:: SCANVI.history

.. autoattribute:: SCANVI.is_trained

.. autoattribute:: SCANVI.minified_data_type

.. autoattribute:: SCANVI.registry

.. autoattribute:: SCANVI.run_id

.. autoattribute:: SCANVI.run_name

.. autoattribute:: SCANVI.summary_string

.. autoattribute:: SCANVI.test_indices

.. autoattribute:: SCANVI.train_indices

.. autoattribute:: SCANVI.validation_indices






Methods
~~~~~~~



.. automethod:: SCANVI.convert_legacy_save

.. automethod:: SCANVI.data_registry

.. automethod:: SCANVI.deregister_manager

.. automethod:: SCANVI.differential_abundance

.. automethod:: SCANVI.differential_expression

.. automethod:: SCANVI.from_scvi_model

.. automethod:: SCANVI.get_aggregated_posterior

.. automethod:: SCANVI.get_anndata_manager

.. automethod:: SCANVI.get_elbo

.. automethod:: SCANVI.get_feature_correlation_matrix

.. automethod:: SCANVI.get_from_registry

.. automethod:: SCANVI.get_importance_weights

.. automethod:: SCANVI.get_latent_library_size

.. automethod:: SCANVI.get_latent_representation

.. automethod:: SCANVI.get_likelihood_parameters

.. automethod:: SCANVI.get_marginal_ll

.. automethod:: SCANVI.get_normalized_expression

.. automethod:: SCANVI.get_ranked_features

.. automethod:: SCANVI.get_reconstruction_error

.. automethod:: SCANVI.get_setup_arg

.. automethod:: SCANVI.get_state_registry

.. automethod:: SCANVI.get_var_names

.. automethod:: SCANVI.load

.. automethod:: SCANVI.load_query_data

.. automethod:: SCANVI.load_registry

.. automethod:: SCANVI.minify_adata

.. automethod:: SCANVI.posterior_predictive_sample

.. automethod:: SCANVI.predict

.. automethod:: SCANVI.prepare_query_anndata

.. automethod:: SCANVI.prepare_query_mudata

.. automethod:: SCANVI.register_manager

.. automethod:: SCANVI.save

.. automethod:: SCANVI.setup_annbatch

.. automethod:: SCANVI.setup_anndata

.. automethod:: SCANVI.shap_adata_predict

.. automethod:: SCANVI.shap_predict

.. automethod:: SCANVI.to_device

.. automethod:: SCANVI.train

.. automethod:: SCANVI.transfer_fields

.. automethod:: SCANVI.update_setup_method_args

.. automethod:: SCANVI.view_anndata_setup

.. automethod:: SCANVI.view_registry

.. automethod:: SCANVI.view_setup_args

.. automethod:: SCANVI.view_setup_method_args