Identify groups of related cells from allele frequency data. This will cluster the cells based on their allele frequencies, reorder the factor levels for the cluster identities by hierarchical clustering the collapsed (pseudobulk) cluster allele frequencies, and set the variable features for the allele frequency assay to the order of features defined by hierarchical clustering.
FindClonotypes(
object,
assay = NULL,
features = NULL,
metric = "cosine",
resolution = 1,
k = 10,
algorithm = 3
)Returns a Seurat object
A Seurat object
Name of assay to use
Features to include when constructing neighbor graph
Distance metric to use
Clustering resolution to use. See
FindClusters
Passed to k.param argument in
FindNeighbors
Community detection algorithm to use. See
FindClusters