scvi.external.CYTOVI
====================

.. currentmodule:: scvi.external

.. add toctree option to make autodoc generate the pages

.. autoclass:: CYTOVI



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

.. autosummary::

    ~scvi.external.CYTOVI.adata
    ~scvi.external.CYTOVI.adata_manager
    ~scvi.external.CYTOVI.device
    ~scvi.external.CYTOVI.get_normalized_function_name
    ~scvi.external.CYTOVI.history
    ~scvi.external.CYTOVI.is_trained
    ~scvi.external.CYTOVI.registry
    ~scvi.external.CYTOVI.run_id
    ~scvi.external.CYTOVI.run_name
    ~scvi.external.CYTOVI.summary_string
    ~scvi.external.CYTOVI.test_indices
    ~scvi.external.CYTOVI.train_indices
    ~scvi.external.CYTOVI.validation_indices





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

.. autosummary::

    ~scvi.external.CYTOVI.convert_legacy_save
    ~scvi.external.CYTOVI.data_registry
    ~scvi.external.CYTOVI.deregister_manager
    ~scvi.external.CYTOVI.differential_abundance
    ~scvi.external.CYTOVI.differential_expression
    ~scvi.external.CYTOVI.get_aggregated_posterior
    ~scvi.external.CYTOVI.get_anndata_manager
    ~scvi.external.CYTOVI.get_elbo
    ~scvi.external.CYTOVI.get_feature_correlation_matrix
    ~scvi.external.CYTOVI.get_from_registry
    ~scvi.external.CYTOVI.get_importance_weights
    ~scvi.external.CYTOVI.get_latent_library_size
    ~scvi.external.CYTOVI.get_latent_representation
    ~scvi.external.CYTOVI.get_likelihood_parameters
    ~scvi.external.CYTOVI.get_marginal_ll
    ~scvi.external.CYTOVI.get_normalized_expression
    ~scvi.external.CYTOVI.get_reconstruction_error
    ~scvi.external.CYTOVI.get_sample_logprobs
    ~scvi.external.CYTOVI.get_setup_arg
    ~scvi.external.CYTOVI.get_state_registry
    ~scvi.external.CYTOVI.get_var_names
    ~scvi.external.CYTOVI.impute_categories_from_reference
    ~scvi.external.CYTOVI.impute_rna_from_reference
    ~scvi.external.CYTOVI.load
    ~scvi.external.CYTOVI.load_query_data
    ~scvi.external.CYTOVI.load_registry
    ~scvi.external.CYTOVI.posterior_predictive_sample
    ~scvi.external.CYTOVI.prepare_query_anndata
    ~scvi.external.CYTOVI.prepare_query_mudata
    ~scvi.external.CYTOVI.register_manager
    ~scvi.external.CYTOVI.save
    ~scvi.external.CYTOVI.setup_anndata
    ~scvi.external.CYTOVI.to_device
    ~scvi.external.CYTOVI.train
    ~scvi.external.CYTOVI.transfer_fields
    ~scvi.external.CYTOVI.update_setup_method_args
    ~scvi.external.CYTOVI.view_anndata_setup
    ~scvi.external.CYTOVI.view_registry
    ~scvi.external.CYTOVI.view_setup_args
    ~scvi.external.CYTOVI.view_setup_method_args





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



.. autoattribute:: CYTOVI.adata

.. autoattribute:: CYTOVI.adata_manager

.. autoattribute:: CYTOVI.device

.. autoattribute:: CYTOVI.get_normalized_function_name

.. autoattribute:: CYTOVI.history

.. autoattribute:: CYTOVI.is_trained

.. autoattribute:: CYTOVI.registry

.. autoattribute:: CYTOVI.run_id

.. autoattribute:: CYTOVI.run_name

.. autoattribute:: CYTOVI.summary_string

.. autoattribute:: CYTOVI.test_indices

.. autoattribute:: CYTOVI.train_indices

.. autoattribute:: CYTOVI.validation_indices






Methods
~~~~~~~



.. automethod:: CYTOVI.convert_legacy_save

.. automethod:: CYTOVI.data_registry

.. automethod:: CYTOVI.deregister_manager

.. automethod:: CYTOVI.differential_abundance

.. automethod:: CYTOVI.differential_expression

.. automethod:: CYTOVI.get_aggregated_posterior

.. automethod:: CYTOVI.get_anndata_manager

.. automethod:: CYTOVI.get_elbo

.. automethod:: CYTOVI.get_feature_correlation_matrix

.. automethod:: CYTOVI.get_from_registry

.. automethod:: CYTOVI.get_importance_weights

.. automethod:: CYTOVI.get_latent_library_size

.. automethod:: CYTOVI.get_latent_representation

.. automethod:: CYTOVI.get_likelihood_parameters

.. automethod:: CYTOVI.get_marginal_ll

.. automethod:: CYTOVI.get_normalized_expression

.. automethod:: CYTOVI.get_reconstruction_error

.. automethod:: CYTOVI.get_sample_logprobs

.. automethod:: CYTOVI.get_setup_arg

.. automethod:: CYTOVI.get_state_registry

.. automethod:: CYTOVI.get_var_names

.. automethod:: CYTOVI.impute_categories_from_reference

.. automethod:: CYTOVI.impute_rna_from_reference

.. automethod:: CYTOVI.load

.. automethod:: CYTOVI.load_query_data

.. automethod:: CYTOVI.load_registry

.. automethod:: CYTOVI.posterior_predictive_sample

.. automethod:: CYTOVI.prepare_query_anndata

.. automethod:: CYTOVI.prepare_query_mudata

.. automethod:: CYTOVI.register_manager

.. automethod:: CYTOVI.save

.. automethod:: CYTOVI.setup_anndata

.. automethod:: CYTOVI.to_device

.. automethod:: CYTOVI.train

.. automethod:: CYTOVI.transfer_fields

.. automethod:: CYTOVI.update_setup_method_args

.. automethod:: CYTOVI.view_anndata_setup

.. automethod:: CYTOVI.view_registry

.. automethod:: CYTOVI.view_setup_args

.. automethod:: CYTOVI.view_setup_method_args