get_factors {MOFA2} | R Documentation

## Get factors

### Description

Extract the latent factors from the model.

### Usage

    get_factors(
      object,
      groups = "all",
      factors = "all",
      scale = FALSE,
      as.data.frame = FALSE
    )

### Arguments

`object` | a trained `MOFA` object.
`groups` | character vector with the group name(s), or numeric vector with the group index(es). Default is "all".
`factors` | character vector with the factor name(s), or numeric vector with the factor index(es). Default is "all".
`scale` | logical indicating whether to scale factor values.
`as.data.frame` | logical indicating whether to return a long data frame instead of a matrix. Default is `FALSE`.

### Value

By default it returns the latent factor matrix of dimensionality (N,K), where N is number of samples and K is number of factors.
Alternatively, if `as.data.frame` is `TRUE`, returns a long-formatted data frame with columns (sample,factor,value).

### Examples

    # Using an existing trained model on simulated data
    file <- system.file("extdata", "model.hdf5", package = "MOFA2")
    model <- load_model(file)

    # Fetch factors in matrix format (a list, one matrix per group)
    factors <- get_factors(model)

    # Concatenate groups
    factors <- do.call("rbind",factors)

    # Fetch factors in data.frame format instead of matrix format
    factors <- get_factors(model, as.data.frame = TRUE)

[Package MOFA2 version 1.2.2 Index]