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Write a Seurat object to TileDB-SOMA format

Source: R/ReadWriteSOMA.R
writeSOMA.Rd

Writes a Seurat object to a TileDB-SOMA experiment. Uses the tiledbsoma::write_soma() function from the tiledbsoma package, which handles the full conversion of assays, metadata, embeddings, and graphs.

Usage

writeSOMA(object, uri, measurement = NULL, overwrite = FALSE, verbose = TRUE)

Arguments

object

A Seurat object

uri

Output URI (local path or cloud URI such as tiledb://... or s3://...)

measurement

Name for the primary measurement. If NULL (default), uses DefaultAssay(object).

overwrite

If TRUE, remove any existing SOMA at uri before writing. Default is FALSE.

verbose

Show progress messages

Value

Invisibly returns uri

See also

readSOMA, scConvert

Examples

if (FALSE) { # \dontrun{
library(scConvert)
library(Seurat)

# Write a Seurat object to SOMA
writeSOMA(seurat_obj, uri = "output_soma")

# Overwrite existing
writeSOMA(seurat_obj, uri = "output_soma", overwrite = TRUE)
} # }