MOFA {MOFA2} | R Documentation

## Class to store a mofa model

### Description

The `MOFA` is an S4 class used to store all relevant data to analyse a MOFA model

### Slots

`data`

  The input data

`intercepts`

  Feature intercepts

`samples_metadata`

  Samples metadata

`features_metadata`

  Features metadata.

`imputed_data`

  The imputed data.

`expectations`

  expected values of the factors and the loadings.

`dim_red`

  non-linear dimensionality reduction manifolds.

`training_stats`

  model training statistics.

`data_options`

  Data processing options.

`training_options`

  Model training options.

`stochastic_options`

  Stochastic variational inference options.

`model_options`

  Model options.

`mefisto_options`

  Options for the use of MEFISO

`dimensions`

  Dimensionalities of the model: M for the number of views, G for the number of groups, N for the number of samples (per group), C for the number of covariates per sample, D for the number of features (per view), K for the number of factors.

`on_disk`

  Logical indicating whether data is loaded from disk.

`cache`

  Cache.

`status`

  Auxiliary variable indicating whether the model has been trained.

`covariates`

  optional slot to store sample covariate for training in MEFISTO

`covariates_warped`

  optional slot to store warped sample covariate for training in MEFISTO

`interpolated_Z`

  optional slot to store interpolated factor values (used only with MEFISTO)

[Package MOFA2 version 1.2.2 Index]