Plot slices from a segmentation — seg

Creates a `ggplot` plot of up to 3 different slices (one per anatomical plane) of the segmentation

seg_plot(
  segmentation,
  s_slice = NULL,
  c_slice = NULL,
  a_slice = NULL,
  smooth = TRUE,
  smoothness = 3,
  show_axis_rulers = TRUE,
  show_outline = TRUE,
  show_labels = FALSE,
  label_size = 2,
  minsize = 10,
  wrap_options = 1
)

Arguments

segmentation: a segmentation class object
s_slice: numeric, the slice number (index) on the sagittal plane
c_slice: numeric, the slice number (index) on the coronal plane
a_slice: numeric, the slice number (index) on the axial plane
smooth: logical, should polygons be smoothed before drawing? Default is TRUE. Uses kernel smoothing.
smoothness: numeric, the argument passed to the kernel smoothing function.
show_axis_rulers: logical, should rulers for each axis be shown in each view? Default is TRUE.
show_outline: logical, should the maximum segmentation outline be plotted? Default is TRUE.
show_labels: logical, should structure acronym labels be shown on the plot? Default is FALSE.
label_size: numeric, the size of the labels.
minsize: numeric, the minimum number of points to create a polygon. Any structure in the slice with fewer points than this number will be discarded. Default is 10.
wrap_options: numeric, the number of rows for the facet wrapping. Default is 1.

Value

a `ggplot` object with the graph

Examples

array_cubes <- dummy_cubes(10)
ontology <- dummy_ontology()

seg <- seg_draw(
  array = array_cubes,
  ontology = ontology,
  verbose = FALSE
)

seg_plot(seg, s_slice = 10, a_slice = 4, c_slice = 2, smooth = FALSE)


# With labels
seg_plot(seg, s_slice = 10, a_slice = 4, c_slice = 2, smooth = FALSE, 
         show_labels = TRUE)

         
# Different wrap options:
seg_plot(seg, s_slice = 10, a_slice = 4, c_slice = 2, smooth = FALSE,
wrap_options = 2)