cluster_spatial_expr_pattern: Cluster spatial expression features

In Czh3/iSpatial: infer transcriptome-wide spatial expression via integration of scRNA and spRNA

Cluster spatial expression features

Description

Clustering the genes based on the spatial expression pattern.

Usage

cluster_spatial_expr_pattern(
  obj,
  assay = "enhanced",
  feature,
  bin = 20,
  n.cluster = 12,
  cluster.method = "ward.D2",
  cor.method = "pearson",
  ncol.plot = 4,
  n.core = 1
)

Arguments

obj	seurat object
assay	assay to use
feature	features (genes) to get spatial expression patterns
bin	number of bins used to segregate the image
n.cluster	number of clusters
cluster.method	hclust method
cor.method	correlation method
ncol.plot	number of columns for plotting
n.core	number of CPU cores used

Value

return a vector showing the genes in each cluster

Czh3/iSpatial documentation built on Sept. 15, 2022, 10:32 p.m.