MOFA: Class to store a mofa model
In bioFAM/MOFA2: Multi-Omics Factor Analysis v2

MOFA	R Documentation

Class to store a mofa model

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

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)