data.dir: Directory containing the matrix.mtx, genes.tsv (or features.tsv), and barcodes.tsv files provided by 10X. A vector or named vector can be given in order to load several data directories. If a named vector is given, the cell barcode names will be prefixed with the name.
gene.column: Specify which column of genes.tsv or features.tsv to use for gene names; default is 2
cell.column: Specify which column of barcodes.tsv to use for cell names; default is 1
unique.features: Make feature names unique (default TRUE)
strip.suffix: Remove trailing "-1" if present in all cell barcodes.
Returns
If features.csv indicates the data has multiple data types, a list containing a sparse matrix of the data from each type will be returned. Otherwise a sparse matrix containing the expression data will be returned.
Examples
## Not run:# For output from CellRanger < 3.0data_dir <-'path/to/data/directory'list.files(data_dir)# Should show barcodes.tsv, genes.tsv, and matrix.mtxexpression_matrix <- Read10X(data.dir = data_dir)seurat_object = CreateSeuratObject(counts = expression_matrix)# For output from CellRanger >= 3.0 with multiple data typesdata_dir <-'path/to/data/directory'list.files(data_dir)# Should show barcodes.tsv.gz, features.tsv.gz, and matrix.mtx.gzdata <- Read10X(data.dir = data_dir)seurat_object = CreateSeuratObject(counts = data$`Gene Expression`)seurat_object[['Protein']]= CreateAssayObject(counts = data$`Antibody Capture`)## End(Not run)