Plot slices of volume
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 to1
for'Axial'
plane,2
for'Sagittal'
, and3
for'Coronal'
.- ...
additional arguments passing into
image