subsetViews: Subset views

In bioFAM/MOFA: Multi-Omics Factor Analysis (MOFA)

Description

Method to subset (or sort) views. This function can remove entire views from the model. For example, you might want to generate the plotVarianceExplained plot excluding a particular view.
This functionality is only for exploratory purposes. If some view(s) are not of interest we strongly recommend removing them before training the model.

Usage

subsetViews(object, views)

Arguments

object	a MOFAmodel object.
views	character vector with the view names, numeric vector with the view indices or logical vector with the view to be kept as TRUE.

Value

MOFAmodel object with a subset of views

Examples

# Using an existing trained model on the CLL data
filepath <- system.file("extdata", "CLL_model.hdf5", package = "MOFAdata")
MOFA_CLL <- loadModel(filepath)
# Subset views via character vector
MOFA_CLL_small <- subsetViews(MOFA_CLL, views=c("Drugs","Methylation"))
MOFA_CLL_small
# Subset views via numeric vector
MOFA_CLL_small <- subsetViews(MOFA_CLL, views=2:3)
MOFA_CLL_small

bioFAM/MOFA documentation built on Oct. 3, 2020, 12:53 a.m.