get_factors | R Documentation |
Extract the latent factors from the model.
get_factors(
object,
groups = "all",
factors = "all",
scale = FALSE,
as.data.frame = FALSE
)
object |
a trained |
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 |
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).
# 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)
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