README.md

netplot

R Build
status USC’s Department of Preventive
Medicine

An alternative graph visualization engine that puts an emphasis on aesthetics at the same time of providing default parameters that provide visualizations that are out-of-the-box nice.

Some features:

  1. Auto-scaling of vertices using sizes relative to the plotting device.
  2. Embedded edge color mixer.
  3. True curved edges drawing.
  4. User-defined edge curvature.
  5. Nicer vertex frame color.
  6. Better use of space filling the plotting device.

The package uses the grid plotting system (just like ggplot2).

Installation

And the development version from GitHub with:

# install.packages("devtools")
devtools::install_github("USCCANA/netplot")

Example

This is a basic example which shows you how to solve a common problem:

library(igraph)
#> 
#> Attaching package: 'igraph'
#> The following objects are masked from 'package:stats':
#> 
#>     decompose, spectrum
#> The following object is masked from 'package:base':
#> 
#>     union
library(netplot)
#> 
#> Attaching package: 'netplot'
#> The following object is masked from 'package:igraph':
#> 
#>     ego
set.seed(1)
data("UKfaculty", package = "igraphdata")
l <- layout_with_fr(UKfaculty)

plot(UKfaculty, layout = l) # ala igraph

nplot(UKfaculty, layout = l) # ala netplot

sna::gplot(intergraph::asNetwork(UKfaculty), coord=l)

UKfaculty

# Random names
set.seed(1)
nam <- sample(babynames::babynames$name, vcount(UKfaculty))

ans <- nplot(
  UKfaculty,
  layout                = l,
  vertex.color          = grDevices::hcl.colors(5, "Plasma")[V(UKfaculty)$Group + 1],
  vertex.label          = nam,
  vertex.size.range     = c(.01, .04, 4),
  vertex.label.col      =  "black",
  vertex.label.fontface = "bold",
  bg.col                = "transparent",
  vertex.label.show     = .5,
  vertex.label.range    = c(10, 25),
  edge.width.range      = c(1, 4, 5)
  )


# Plot it!
ans

USairports

# Loading the data
data(USairports, package="igraphdata")

# Generating a layout naively
layout   <- V(USairports)$Position
layout   <- do.call(rbind, lapply(layout, function(x) strsplit(x, " ")[[1]]))
layout[] <- stringr::str_remove(layout, "^[a-zA-Z]+")
layout   <- matrix(as.numeric(layout[]), ncol=2)

# Some missingness
layout[which(!complete.cases(layout)), ] <- apply(layout, 2, mean, na.rm=TRUE)

# Have to rotate it (it doesn't matter the origin)
layout <- netplot:::rotate(layout, c(0,0), pi/2)

# Simplifying the network
net <- simplify(USairports, edge.attr.comb = list(
  weight = "sum",
  name   = "concat",
  Passengers = "sum",
  "ignore"
))

# Getting a pretty color

f <- 1.5
col <- adjustcolor(
  rev(grDevices::hcl.colors(10, alpha = .5))[1],
  red.f = f, blue.f = f, green.f = f
  )

nplot(
  net,
  layout            = layout,
  edge.width        = E(net)$Passengers,
  vertex.color      = col,
  skip.vertex       = TRUE,
  vertex.size.range = c(0,0),
  edge.width.range  = c(.75, 4, 4),
  bg.col            = "black"
  )



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netplot documentation built on June 16, 2021, 9:09 a.m.