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Description

Mouse scANVI reference model

Model properties

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

model_init_params:

{
    "n_hidden": 128,
    "n_latent": 10,
    "n_layers": 2,
    "dropout_rate": 0.1,
    "dispersion": "gene",
    "gene_likelihood": "nb",
    "linear_classifier": false,
    "latent_distribution": "normal"
}

model_setup_anndata_args:

{
    "labels_key": "ct",
    "unlabeled_category": "Unknown",
    "layer": "counts",
    "batch_key": "batch",
    "size_factor_key": null,
    "categorical_covariate_keys": null,
    "continuous_covariate_keys": null
}

model_summary_stats:

  Summary Stat Key    Value 
  n_batch     18  
  n_cells    2004  
 n_extra_categorical_covs    0  
 n_extra_continuous_covs     0  
  n_labels     16  
  n_vars    3000  

model_data_registry:

 Registry Key    scvi-tools Location  
  X     adata.layers['counts']  
  batch    adata.obs['_scvi_batch']  
  labels    adata.obs['_scvi_labels'] 

model_parent_module: https://zenodo.org/records/10669600/files/01_mouse_reprocessed.h5ad?download=1

data_is_minified: False

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: https://github.com/brickmanlab/proks-salehin-et-al

Training code

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

Training code url: N/A

References

Proks, Salehin et al., biorXiv

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