PlotNetwork: PlotNetwork

In carter-allen/IRISFGM: Comprehensive Analysis of Gene Interactivity Networks Based on Single-Cell RNA-Seq

Description

PlotNetwork

PlotNetwork This function is to plot the network for selected biclusters to show the genes (or cells) overlapping relations.

Usage

PlotNetwork(object, ...)

.plotnetwork(
  object,
  edge.by = "gene",
  lay.out = "linear",
  N.bicluster = c(1:20)
)

## S4 method for signature 'IRISFGM'
PlotNetwork(
  object,
  edge.by = "gene",
  lay.out = "linear",
  N.bicluster = c(1:20)
)

Arguments

object	Input IRIS-FGM object.
...	other arguments passed to methods
edge.by	Should be "cell" or by "gene," indicating nodes label. The default value is by "gene."
lay.out	Should be one type of layouts to show nodes' arrangement, including 'linear'(default), 'star', 'circle', 'gem', 'dh', 'graphopt', 'grid', 'mds', 'randomly', 'fr', 'kk', 'drl', 'lgl'.
N.bicluster	Should be two integers indicating the number of two biclusters.

Value

It will generate a global network regarding overlapping genes or cells.

Examples

## Not run: object <- PlotNetwork(object,edge.by = 'gene',N.bicluster =c(1:20) )

carter-allen/IRISFGM documentation built on Dec. 31, 2020, 9:54 p.m.