convert_seurat_to_bpcells

Convert a Seurat object to BPCells on-disk format

Converts the counts matrix of specified assays in a Seurat object to BPCells format, saving the matrices on disk and updating the Seurat object to use these on-disk matrices. Only works for single count layers.

Usage

convert_seurat_to_bpcells(seurat_obj, output_dir = NULL, assays = "RNA")

Arguments

seurat_obj

A Seurat object to be converted.

output_dir

Directory where the BPCells matrices will be saved. Defaults to a subdirectory in the system's temporary directory named after the Seurat object.

assays

Character vector of assays to convert. Defaults to "RNA".

Value

The updated Seurat object using on-disk matrices.

Examples

if (FALSE) { # \dontrun{
# Example usage
seurat_obj <- readRDS("/path/to/your/seurat_object.rds")
seurat_obj <- convert_seurat_to_bpcells(seurat_obj)
} # }