Load data from different sources

readData(
  data,
  type = c("10X", "10X_h5", "expMatrix", "SingleCellExperiment", "Seurat",
    "CellDataSet", "loom"),
  meta.data = NULL,
  species
)

Arguments

data	Can be a directory like "/outs/filtered_gene_bc_matrices/" provided by 10X. Or an expression matrix of single-cell RNA-seq (matrix or dgCMatrix). Or an object from R/python packages such as scater, scran, Seurat, monocle.
type	10X, 10X_h5, expMatrix, SingleCellExperiment, Seurat, CellDataSet, loom
meta.data	Additional cell-level metadata to add to the Seurat object. Should be a data frame where the rows are cell names and the columns are additional metadata fields.
species	Species name, such as Homo sapiens or Mus musculus.

Value

Seurat object

Examples

if (FALSE) {
SeuratObj <- CellFunMap::readData(data = "~/outs/filtered_gene_bc_matrices/GRCh38/",
                                  type = "10X", species = "Homo sapiens")
SeuratObj <- CellFunMap::readData(data = counts, type = 'expMatrix', species = "Homo sapiens")
}