create_mofa_from_Seurat: create a MOFA object from a Seurat object

In bioFAM/MOFA2: Multi-Omics Factor Analysis v2

create a MOFA object from a Seurat object

Description

Method to create a MOFA object from a Seurat object

Usage

create_mofa_from_Seurat(
  seurat,
  groups = NULL,
  assays = NULL,
  slot = "scale.data",
  features = NULL,
  extract_metadata = FALSE
)

Arguments

seurat	Seurat object
groups	a string specifying column name of the samples metadata to use it as a group variable. Alternatively, a character vector with group assignment for every sample. Default is NULL (no group structure).
assays	assays to use, default is NULL, it fetched all assays available
slot	assay slot to be used (default is scale.data).
features	a list with vectors, which are used to subset features, with names corresponding to assays; a vector can be provided when only one assay is used
extract_metadata	logical indicating whether to incorporate the metadata from the Seurat object into the MOFA object

Value

Returns an untrained MOFA object

bioFAM/MOFA2 documentation built on June 12, 2024, 3:57 p.m.