Read10X_Image: Load a 10X Genomics Visium Image

In satijalab/seurat: Tools for Single Cell Genomics

Load a 10X Genomics Visium Image

Description

Load a 10X Genomics Visium Image

Usage

Read10X_Image(
  image.dir,
  image.name = "tissue_lowres_image.png",
  assay = "Spatial",
  slice = "slice1",
  filter.matrix = TRUE
)

Arguments

image.dir	Path to directory with 10X Genomics visium image data; should include files tissue_lowres_image.png, scalefactors_json.json and tissue_positions_list.csv
image.name	PNG file to read in
assay	Name of associated assay
slice	Name for the image, used to populate the instance's key
filter.matrix	Filter spot/feature matrix to only include spots that have been determined to be over tissue

Value

A VisiumV2 object

See Also

VisiumV2 Load10X_Spatial

satijalab/seurat documentation built on May 11, 2024, 4:04 a.m.