Description Usage Arguments Value
This function create a Seurat object from a 10x output directory by loading a matrix (matrix.mtx.gz), a barcode file (barcodes.tsv.gz) and a feature file (features.tsv.gz) from the current directory.
1 2 3 4 5 6 7 8 9 | Read10xData(
data.dir,
output.dir = NULL,
min.cells = 3,
min.features = 200,
mt.pattern = "^mt-",
project.name = "SeuratProject",
...
)
|
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. |
output.dir |
Path to the destination folder of saved files |
min.cells |
Include features detected in at least this many cells. Will subset the counts matrix as well. To reintroduce excluded features, create a new object with a lower cutoff. |
min.features |
Include cells where at least this many features are detected. |
mt.pattern |
Regex pattern of the mitochondrial genes ('^MT-' or '^mt-') |
project.name |
Name of the project/object used for titles in plots |
... |
Arguments passed to |
A Seurat Object and its QC plots
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