Seurat (version 5.0.3)

LoadSTARmap: Load STARmap data

Description

Load STARmap data

Usage

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"
)

Value

A Seurat object

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

See Also

STARmap