plot_ShortestPath_on_forceDirectedGraph_label_by_clusters: Plot the shortest-path on the force-directed graph with...

In supatt-lab/SingCellaR: SingCellaR: an integrative analysis tool for single-cell RNA sequencing (scRNA-seq) data

Plot the shortest-path on the force-directed graph with identified clusters

Description

Plot the shortest-path on the force-directed graph with identified clusters

Usage

plot_ShortestPath_on_forceDirectedGraph_label_by_clusters(
  object,
  start_cluster = "",
  end_cluster = "",
  show_method = c("walktrap", "louvain", "kmeans"),
  vertex.size = 2,
  path.size = 2,
  path.type = 1,
  path.color = "red",
  mark.clusters = TRUE,
  mark.font.size = 10,
  mark.font.color = "yellow",
  add.cluster.in.cells = FALSE,
  cluster.font.size = 1,
  cluster.font.color = "yellow",
  edge.size = 0.2,
  edge.color = "gray"
)

Arguments

object	The SingCellaR object.
start_cluster	The starting cluster.
end_cluster	The ending cluster.
show_method	The clustering method names used to generate clusters.
vertex.size	The node size. Default 2
path.size	The path size. Default 2
path.type	The path type. Default 1
path.color	The path color. Default red
mark.clusters	is logical. If TRUE, the number of identified clusters will be displayed.
mark.font.size	The font size of the cluster name. Default 10
mark.font.color	The font color of the cluster name. Default yellow
add.cluster.in.cells	is logical. If TRUE, the cluster name will be displayed in each data point.
cluster.font.size	The font size of cluster name in each data point. Default 1
cluster.font.color	The font color of cluster name in each data point. Default yellow
edge.size	The size of the edge. Default 0.2
edge.color	The edge color. Default gray

supatt-lab/SingCellaR documentation built on Aug. 24, 2023, 5:49 p.m.