PlotSteinertree: Plot steiner tree

In wycwycpku/RSCORE: RSCORE (R-package of Single-Cell mOleculaR nEtwork)

Description

show the steiner tree of given clusters

Usage

PlotSteinertree(
  object,
  ident = NULL,
  geneset1 = NULL,
  geneset2 = NULL,
  nodes = NULL,
  method = "sp",
  weighted = T,
  onlysteiner = T,
  typeof_node_size = c("pagerank", "degree"),
  only_label_terminal = F,
  label_num = 20
)

Arguments

ident	which class you want to show, default: all
geneset1	If ident == NULL, then you should provide two set of genes to compare
geneset2	same to geneset1
nodes	the nodes you want to labeled in the Steiner tree, if it is NULL (default), see 'label_num'
method	how to find steinertree, default is 'sp' (Shortest Path Based Approximation) 'kb' (Kruskal's minimum spanning tree algorithm) also can be choosen. Be careful, 'kb' is very slow.
weighted	if it is TRUE, the network will be weighted, default TRUE
onlysteiner	if it is TRUE, will only show the steiner tree, default TRUE
typeof_node_size	'pagerank' or 'degree', former is default
only_label_terminal	default is F
label_num	If nodes == NULL, the number of nodes you want to label, default is 20

wycwycpku/RSCORE documentation built on Sept. 5, 2021, 4:25 p.m.