plot_bipartite: plot disease-gene (or GO term etc.) associations as a...

Description Usage Arguments Value Author(s) Examples

View source: R/Plots.R

Description

plot a bipartite graph which visualizes associations between diseases and genes (or GO terms etc.)

Usage

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plot_bipartite(xylist, vertex.size = 12, vertex.shape1 = "circle",
  vertex.shape2 = "square", vertex.color1 = "darkseagreen",
  vertex.color2 = "turquoise1", vertex.label.font = 2,
  vertex.label.dist = 0, vertex.label.color = "black",
  vertex.label.cex = 0.8, edge.color = "black",
  layout = layout.kamada.kawai)

Arguments

xylist

a named list object which names are diseases and each element of the list is a gene set with respect to each disease.

vertex.size

vertex size

vertex.shape1

shape for one kind of vertex

vertex.shape2

shape for another kind of vertex

vertex.color1

color for one kind of vertex

vertex.color2

color for another kind of vertex

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

Value

an igraph plot object

Author(s)

Peng Ni, Min Li

Examples

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dSimer documentation built on Nov. 17, 2017, 12:51 p.m.