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Save the cell metadata and the reduction embeddings as a single table.

save_metadata.Rd

Joins the requested reductions onto the cell metadata on a cell column. Reductions that are not present in the object are skipped, so this works before and after the dimensionality reduction steps have run.

Usage

save_metadata(
  x,
  reduction = c("tsne", "umap"),
  digits = 3,
  file = "metadata.csv.gz"
)

Arguments

x

A Seurat object.

reduction

Reductions to join onto the metadata.

digits

Number of digits to round the embeddings to.

file

Path to write the table to as a csv. Set to NULL to skip writing and just return the tibble.

Value

A tibble with one row per cell.