vizGlassbrain

Visualizing brain connectivity with a glass brain plot

Usage

vizGlassbrain(
  data,
  surf_color = "grey",
  node_color = "#00BA38",
  surf_alpha = 0.2,
  cmap,
  node_size = 8,
  node_label = TRUE,
  node_label_size = 10,
  node_label_color = "black",
  edgethickness = 8,
  limits,
  colorbar_title = "Connectivity strength",
  orientation_labels = TRUE,
  remove_brain = FALSE
)

Arguments

data

a vector of edge values with a length of 4005, 7021, 23871 or 30135

surf_color

color of the cortical surface. Set to 'grey' by default

node_color

color of the nodes. Set to '#00BA38' by default

surf_alpha

alpha value of the cortical surface, where 0 will cause the cortical surface to disappear and 1 will cause the cortical surface to be completely opaque. Set to 0.2 by default

cmap

A string vector containing 2 to 3 color names/codes specifying the colors to be used for the color scale. See RColorBrewer::display.brewer.all() for all possible cmap options. If none are specified, appropriate colors will be automatically selected according to range(data)

node_size

size parameter for the dots representing the nodes. Set to 8 by default.

node_label

option to show node labels. Set to TRUE by default.

node_label_size

font size of the node labels. Set to 10 by default.

node_label_color

font color of the node labels. Set to black by default.

edgethickness

a value to adjust the thickness of the edges. Set to 8 by default.

limits

A combined pair of numeric values composed of the lower and upper color scale limits of the plot. When left unspecified, the symmetrical limits c(-max(abs(data),max(abs(data))) will be used.

colorbar_title

title for the colorbar legend. Set to 'Connectivity strength by default

orientation_labels

A boolean object specifying if orientation labels are to be displayed. Set to TRUE by default

remove_brain

A boolean object specifying cortical surface should be removed. Set to FALSE by default

Value

outputs a plot_ly object

Details

This function takes a vector of edge values and visualizes the edge-to-edge connectivity with a glass brain plot

Examples

mask=sample(c(1,0), 7021, replace = TRUE, prob = c(0.001, 0.999))
data=runif(7021,min = -1,max=1)*mask

vizGlassbrain(data,orientation_labels = T)