get_x: Get data

In bschilder/scKirby: Automated ingestion and conversion of various single-cell data formats.

Get data

Description

Extract expression matrix metadata from any single-cell object.

Usage

get_x(
  obj,
  transpose = TRUE,
  n = NULL,
  assay = NULL,
  slot = NULL,
  as_sparse = FALSE,
  verbose = TRUE
)

Arguments

obj	A single-cell object supported by scKirby. See converters for a table of all supported conversions.
transpose	Transpose the matrix with Matrix::t.
n	The maximum number of elements to return from that list.
assay	Name of the initial assay
slot	Name of component object to return
as_sparse	Convert to a sparseMatrix.
verbose	Print messages.

Value

A named list of matrices.

Examples

obj <- example_obj("seurat")
X <- get_x(obj)

bschilder/scKirby documentation built on April 14, 2025, 7 p.m.