metadata

license: cc-by-4.0
library_name: scvi-tools
tags:
  - biology
  - genomics
  - single-cell
  - model_cls_name:SCANVI
  - scvi_version:1.1.0
  - anndata_version:0.10.3

Description

To be added...

Model properties

Many model properties are in the model tags. Some more are listed below.

model_init_params:

{
    "n_hidden": 128,
    "n_latent": 30,
    "n_layers": 2,
    "dropout_rate": 0.1,
    "dispersion": "gene",
    "gene_likelihood": "nb",
    "linear_classifier": false,
    "encode_covariates": true,
    "deeply_inject_covariates": false,
    "use_layer_norm": "both",
    "use_batch_norm": "none"
}

model_setup_anndata_args:

{
    "labels_key": "scanvi_label",
    "unlabeled_category": "unlabeled",
    "layer": null,
    "batch_key": "dataset",
    "size_factor_key": null,
    "categorical_covariate_keys": null,
    "continuous_covariate_keys": null
}

model_summary_stats:

Summary Stat Key	Value
n_batch	14
n_cells	584944
n_extra_categorical_covs	0
n_extra_continuous_covs	0
n_labels	29
n_latent_qzm	30
n_latent_qzv	30
n_vars	2000

model_data_registry:

Registry Key	scvi-tools Location
X	adata.X
batch	adata.obs['_scvi_batch']
labels	adata.obs['_scvi_labels']
latent_qzm	adata.obsm['_scanvi_latent_qzm']
latent_qzv	adata.obsm['_scanvi_latent_qzv']
minify_type	adata.uns['_scvi_adata_minify_type']
observed_lib_size	adata.obs['_scanvi_observed_lib_size']

model_parent_module: scvi.model

data_is_minified: True

Training data

This is an optional link to where the training data is stored if it is too large to host on the huggingface Model hub.

Training data url: N/A

Training code

This is an optional link to the code used to train the model.

Training code url: N/A

References

To be added...