findSubclusters-methods: Find subclusters

In edroaldo/fusca: Framework for Unified Single-Cell Analysis

Find subclusters

Description

Calculate spatial clusters inside the clusters already identified by gene expression information.

Usage

findSubclusters(
  object,
  assay.type = "ST",
  sample.name = "Sample1",
  cluster.column = "population",
  subcluster.column = "Subpopulation",
  method = c("mclust", "dbscan"),
  eps = 2,
  minPts = 3
)

## S4 method for signature 'CellRouter'
findSubclusters(
  object,
  assay.type = "ST",
  sample.name = "Sample1",
  cluster.column = "population",
  subcluster.column = "Subpopulation",
  method = c("mclust", "dbscan"),
  eps = 2,
  minPts = 3
)

Arguments

object	the CellRouter object.
assay.type	character; the type of data to use.
sample.name	character; the name of the tissue sample.
cluster.column	character; the name of the column where the clustering information is stored.
subcluster.column	character; the name of the column where the subclustering information will be stored.
method	character; method to perform clustering (mclust or dbscan).
eps	numeric; eps parameter for the DBSCAN method.
minPts	numeric; minPts parameter for the DBSCAN method.

Value

the CellRouter object.

edroaldo/fusca documentation built on March 1, 2023, 1:43 p.m.