library(oro.dicom)
file_path <- system.file("extdata", "disk.dcm", package = "CTRing")
dcm <- readDICOM(file_path)
hdr_df <- dcm$hdr[[1]]
image_info <- getImageInfo(hdr = hdr_df)
im <- imageToMatrix(dcm$img)
im_8bit <- xBitTo8Bit(im, image_info$grayScale)
im_dens <- grayToDensity(im_8bit)
pith_coord <- detect_pith(im_dens, n_segments = 12, pixel = TRUE, toPlot = FALSE)
endPath <- c(472, 284) # manual
# not run - endPath <- locatePathEnd(im_dens, pith_coord) # using the image
path <- extractProfile(im_dens, image_info, pith_coord, endPath, k = 2, r = 5, threshold = 0.002)
pathEwLw <- getEwLw(path)
plotProfile(pathEwLw)
path_avgDens <- calcAvgDens(pathEwLw)
names(path_avgDens)
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