--- a
+++ b/man/getProfileNeighbors.Rd
@@ -0,0 +1,35 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/clustering.R
+\name{getProfileNeighbors}
+\alias{getProfileNeighbors}
+\title{Get profile specific neighbors}
+\usage{
+getProfileNeighbors(
+  object,
+  assay = NULL,
+  method = "kNN",
+  k = 10,
+  data.type = "pca",
+  dims = seq_len(30),
+  graph.key = method
+)
+}
+\arguments{
+\item{object}{a VoltRon object}
+
+\item{assay}{assay name (exp: Assay1) or assay class (exp: Visium, Xenium), see \link{SampleMetadata}. 
+if NULL, the default assay will be used, see \link{vrMainAssay}.}
+
+\item{method}{the method used for graph construction, SNN or kNN}
+
+\item{k}{number of neighbors for kNN}
+
+\item{data.type}{the type of embedding used for neighborhood calculation, e.g. raw counts (raw), normalized counts (norm), PCA embeddings (pca), UMAP embeddings (umap) etc.}
+
+\item{dims}{the set of dimensions of the embedding data}
+
+\item{graph.key}{the name of the graph}
+}
+\description{
+Get neighbors of spatial points
+}