as.Seurat: Convert objects to 'Seurat' objects

In satijalab/seurat: Tools for Single Cell Genomics

Convert objects to Seurat objects

Description

Convert objects to Seurat objects

Usage

## S3 method for class 'CellDataSet'
as.Seurat(x, slot = "counts", assay = "RNA", verbose = TRUE, ...)

## S3 method for class 'SingleCellExperiment'
as.Seurat(
  x,
  counts = "counts",
  data = "logcounts",
  assay = NULL,
  project = "SingleCellExperiment",
  ...
)

Arguments

x	An object to convert to class Seurat
slot	Slot to store expression data as
assay	Name of assays to convert; set to NULL for all assays to be converted
verbose	Show progress updates
...	Arguments passed to other methods
counts	name of the SingleCellExperiment assay to store as counts; set to NULL if only normalized data are present
data	name of the SingleCellExperiment assay to slot as data. Set to NULL if only counts are present
project	Project name for new Seurat object

Value

A Seurat object generated from x

See Also

SeuratObject::as.Seurat

satijalab/seurat documentation built on May 11, 2024, 4:04 a.m.