Load STARmap data

LoadSTARmap(
  data.dir,
  counts.file = "cell_barcode_count.csv",
  gene.file = "genes.csv",
  qhull.file = "qhulls.tsv",
  centroid.file = "centroids.tsv",
  assay = "Spatial",
  image = "image"
)

Arguments

data.dir: location of data directory that contains the counts matrix, gene name, qhull, and centroid files.
counts.file: name of file containing the counts matrix (csv)
gene.file: name of file containing the gene names (csv)
qhull.file: name of file containing the hull coordinates (tsv)
centroid.file: name of file containing the centroid positions (tsv)
assay: Name of assay to associate spatial data to
image: Name of "image" object storing spatial coordinates

Value

A Seurat object

Load STARmap data

Arguments

Value

See also