scvi.external.JointEmbeddingSCVI
================================

.. currentmodule:: scvi.external

.. add toctree option to make autodoc generate the pages

.. autoclass:: JointEmbeddingSCVI



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

.. autosummary::

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





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

.. autosummary::

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





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



.. autoattribute:: JointEmbeddingSCVI.adata

.. autoattribute:: JointEmbeddingSCVI.adata_manager

.. autoattribute:: JointEmbeddingSCVI.device

.. autoattribute:: JointEmbeddingSCVI.get_normalized_function_name

.. autoattribute:: JointEmbeddingSCVI.history

.. autoattribute:: JointEmbeddingSCVI.is_trained

.. autoattribute:: JointEmbeddingSCVI.minified_data_type

.. autoattribute:: JointEmbeddingSCVI.registry

.. autoattribute:: JointEmbeddingSCVI.run_id

.. autoattribute:: JointEmbeddingSCVI.run_name

.. autoattribute:: JointEmbeddingSCVI.summary_string

.. autoattribute:: JointEmbeddingSCVI.test_indices

.. autoattribute:: JointEmbeddingSCVI.train_indices

.. autoattribute:: JointEmbeddingSCVI.validation_indices






Methods
~~~~~~~



.. automethod:: JointEmbeddingSCVI.convert_legacy_save

.. automethod:: JointEmbeddingSCVI.data_registry

.. automethod:: JointEmbeddingSCVI.deregister_manager

.. automethod:: JointEmbeddingSCVI.differential_abundance

.. automethod:: JointEmbeddingSCVI.differential_expression

.. automethod:: JointEmbeddingSCVI.get_aggregated_posterior

.. automethod:: JointEmbeddingSCVI.get_anndata_manager

.. automethod:: JointEmbeddingSCVI.get_batch_representation

.. automethod:: JointEmbeddingSCVI.get_elbo

.. automethod:: JointEmbeddingSCVI.get_feature_correlation_matrix

.. automethod:: JointEmbeddingSCVI.get_from_registry

.. automethod:: JointEmbeddingSCVI.get_importance_weights

.. automethod:: JointEmbeddingSCVI.get_latent_library_size

.. automethod:: JointEmbeddingSCVI.get_latent_representation

.. automethod:: JointEmbeddingSCVI.get_likelihood_parameters

.. automethod:: JointEmbeddingSCVI.get_marginal_ll

.. automethod:: JointEmbeddingSCVI.get_normalized_expression

.. automethod:: JointEmbeddingSCVI.get_reconstruction_error

.. automethod:: JointEmbeddingSCVI.get_setup_arg

.. automethod:: JointEmbeddingSCVI.get_state_registry

.. automethod:: JointEmbeddingSCVI.get_var_names

.. automethod:: JointEmbeddingSCVI.load

.. automethod:: JointEmbeddingSCVI.load_query_data

.. automethod:: JointEmbeddingSCVI.load_registry

.. automethod:: JointEmbeddingSCVI.minify_adata

.. automethod:: JointEmbeddingSCVI.posterior_predictive_sample

.. automethod:: JointEmbeddingSCVI.prepare_query_anndata

.. automethod:: JointEmbeddingSCVI.prepare_query_mudata

.. automethod:: JointEmbeddingSCVI.register_manager

.. automethod:: JointEmbeddingSCVI.save

.. automethod:: JointEmbeddingSCVI.setup_annbatch

.. automethod:: JointEmbeddingSCVI.setup_anndata

.. automethod:: JointEmbeddingSCVI.to_device

.. automethod:: JointEmbeddingSCVI.train

.. automethod:: JointEmbeddingSCVI.transfer_fields

.. automethod:: JointEmbeddingSCVI.update_setup_method_args

.. automethod:: JointEmbeddingSCVI.view_anndata_setup

.. automethod:: JointEmbeddingSCVI.view_registry

.. automethod:: JointEmbeddingSCVI.view_setup_args

.. automethod:: JointEmbeddingSCVI.view_setup_method_args