plot_topo: plot topological relationship of two gene sets
In PengNi/dSimer: Integration of Disease Similarity Methods

Description Usage Arguments Value Author(s) Examples

plot topological relationship of two gene sets (which are associated with two diseases respectively).

plot_topo(geneset1, geneset2, graph, vertexcolor = c("tomato", "orange",
  "lightsteelblue"), vertex.shape = "circle", vertex.size = 14,
  vertex.label.font = 1, vertex.label.dist = 0,
  vertex.label.color = "black", vertex.label.cex = 0.5,
  edge.color = "black", layout = layout.auto)

`geneset1`	a character vector contains gene ids
`geneset2`	another character vector contains gene ids
`graph`	an igraph graph object which represents a gene network
`vertexcolor`	a character vector contains 3 colors for vertexs
`vertex.shape`	vertex shape
`vertex.size`	vertex size
`vertex.label.font`	label text font
`vertex.label.dist`	label text dist
`vertex.label.color`	label text color
`vertex.label.cex`	label text cex
`edge.color`	edge color
`layout`	layout

an igraph plot object

Peng Ni, Min Li

data("PPI_HPRD")
g<-graph.data.frame(PPI_HPRD,directed = FALSE) #get an igraph graph 

data(d2g_fundo_symbol)
a<-d2g_fundo_symbol[["DOID:8242"]] # get gene set a
b<-d2g_fundo_symbol[["DOID:4914"]] # get gene set b

plot_topo(a,b,g)