plot_slices: Plot slices of volume

In threeBrain: Your Advanced 3D Brain Visualization

Plot slices of volume

Description

Plot slices of volume

Usage

plot_slices(
  volume,
  overlays = NULL,
  transform = NULL,
  positions = NULL,
  zoom = 1,
  pixel_width = 0.5,
  col = c("black", "white"),
  normalize = NULL,
  zclip = NULL,
  overlay_alpha = 0.3,
  zlim = normalize,
  main = "",
  title_position = c("left", "top"),
  fun = NULL,
  nc = NA,
  which = NULL,
  ...
)

Arguments

volume	path to volume (underlay)
overlays	images to overlay on top of the underlay, can be either a vector of paths to the overlay volume images, or a sequence of named lists. Each list item has 'volume' (path to the volume) and 'color' (color of the overlay)
transform	rotation of the volume in scanner 'RAS' space
positions	vector of length 3 or matrix of 3 columns, the 'RAS' position of cross-hairs
zoom	zoom-in radio, default is 1
pixel_width	output image pixel resolution; default is 0.5, one pixel is 0.5 millimeters wide
col	color palette, can be a sequence of colors
normalize	range for volume data to be normalized; either NULL (no normalize) or a numeric vector of length two
zclip	clip image densities; if specified, values outside of this range will be clipped into this range
overlay_alpha	transparency of the overlay; default is 0.3
zlim	image plot value range, default is identical to normalize
main	image titles
title_position	title position; choices are "left" or "top"
fun	function with two arguments that will be executed after each image is drawn; can be used to draw cross-hairs or annotate each image
nc	number of "columns" in the plot when there are too many positions, must be positive integer; default is NA (automatically determined)
which	which plane to plot; default is NULL, which will trigger new plots and add titles; set to 1 for 'Axial' plane, 2 for 'Sagittal', and 3 for 'Coronal'.
...	additional arguments passing into image

Value

Nothing

threeBrain documentation built on April 4, 2025, 1:36 a.m.