color_mapping: maps numeric values to a color

In BoneDensityMapping: Maps Bone Densities from CT Scans to Surface Models

maps numeric values to a color

Description

maps numeric values to a color

Usage

color_mapping(x, maxi, mini, color_sel)

Arguments

x	Vector.
maxi	Numeric. Maximum value. Defaults to maximum value in vector. Can be useful to set this manually if there are outliers in the scan data
mini	Numeric. Minimum value. Defaults to minimum value in vector. Can be useful to set this manually if there are outliers in the scan data
color_sel	Vector. Colors to use for map. Defaults to a scale of "grey", "blue", "green", "yellow", "orange", "red", "pink".

Value

Vector of hex color values same length as x

Author(s)

Scott Telfer [e-mail]

Examples

  # Download CT scan
  url <- "https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_hip.nii.gz"
  scan_filepath <- tempfile(fileext = ".nii.gz")
  download.file(url, scan_filepath, mode = "wb")
  nifti <- import_scan(scan_filepath)
  url2 <- "https://github.com/Telfer/BoneDensityMapping/releases/download/v1.0.2/test_CT_femur.stl"
  bone_filepath <- tempfile(fileext = ".stl")
  download.file(url2, bone_filepath, mode = "wb")
  surface_mesh <- import_mesh(bone_filepath)
  mat_peak <- voxel_point_intersect(surface_mesh, nifti, ct_eqn = "linear",
                                    ct_params = c(68.4, 1.106),)
  colors <- color_mapping(mat_peak)

BoneDensityMapping documentation built on Aug. 8, 2025, 6:46 p.m.