ggnet2: Copied code from ggnet's ggnet2 function

In ClusTCR2: Identifying Similar T Cell Receptor Hyper-Variable Sequences with 'ClusTCR2'

Copied code from ggnet's ggnet2 function

Description

Copied code from ggnet's ggnet2 function

Usage

ggnet2(
  net,
  mode = "fruchtermanreingold",
  layout.par = NULL,
  layout.exp = 0,
  alpha = 1,
  color = "grey75",
  shape = 19,
  size = 9,
  max_size = 9,
  na.rm = NA,
  palette = NULL,
  alpha.palette = NULL,
  alpha.legend = NA,
  color.palette = palette,
  color.legend = NA,
  shape.palette = NULL,
  shape.legend = NA,
  size.palette = NULL,
  size.legend = NA,
  size.zero = FALSE,
  size.cut = FALSE,
  size.min = NA,
  size.max = NA,
  label = FALSE,
  label.alpha = 1,
  label.color = "black",
  label.size = max_size/2,
  label.trim = FALSE,
  node.alpha = alpha,
  node.color = color,
  node.label = label,
  node.shape = shape,
  node.size = size,
  edge.alpha = 1,
  edge.color = "grey50",
  edge.lty = "solid",
  edge.size = 0.25,
  edge.label = NULL,
  edge.label.alpha = 1,
  edge.label.color = label.color,
  edge.label.fill = "white",
  edge.label.size = max_size/2,
  arrow.size = 0,
  arrow.gap = 0,
  arrow.type = "closed",
  legend.size = 9,
  legend.position = "right",
  ...
)

Arguments

net	net plot from step 2.
mode	= "fruchtermanreingold"
layout.par	= NULL,
layout.exp	= 0
alpha	= 1
color	= "grey75"
shape	= 19
size	= 9
max_size	= 9
na.rm	= NA
palette	= NULL
alpha.palette	= NULL
alpha.legend	= NA
color.palette	= palette
color.legend	= NA
shape.palette	= NULL
shape.legend	= NA
size.palette	= NULL
size.legend	= NA
size.zero	= FALSE
size.cut	= FALSE
size.min	= NA
size.max	= NA
label	= FALSE
label.alpha	= 1
label.color	= "black"
label.size	= max_size/2
label.trim	= FALSE
node.alpha	see alpha
node.color	see color
node.label	see label
node.shape	see shape
node.size	see size
edge.alpha	= 1
edge.color	the color of the edges, as a color value, a vector of color values, or as an edge attribute containing color values. Defaults to "grey50".
edge.lty	= "solid"
edge.size	= 0.25
edge.label	= NULL
edge.label.alpha	= 1
edge.label.color	= label.color
edge.label.fill	= "white"
edge.label.size	= max_size/2
arrow.size	= 0
arrow.gap	= 0
arrow.type	= "closed"
legend.size	= 9
legend.position	= "right"
...	Other functions in ggplot2

Value

A ggplot object displaying the network plot.

ClusTCR2 documentation built on May 29, 2024, 9:32 a.m.