Parasitemia/Parasitemia/ParasitesMarker.fs

   1 module ParasitesMarker
   2
   3 open System.Drawing
   4
   5 open Emgu.CV
   6 open Emgu.CV.Structure
   7
   8 type Result = {
   9     darkStain: Image<Gray, byte>
  10     stain: Image<Gray, byte>
  11     infection: Image<Gray, byte> }
  12
  13 let find (green: Image<Gray, float32>) (filteredGreen: Image<Gray, float32>) (config: Config.Config) : Result =
  14
  15     // We use the filtered image to find the dark stain.
  16     let { KMedians.fg = fg; KMedians.median_bg = median_bg; KMedians.median_fg = median_fg; KMedians.d_fg = d_fg } = KMedians.kmedians filteredGreen 1.0
  17     let darkStain = d_fg.Cmp(median_bg * config.darkStainLevel, CvEnum.CmpType.GreaterThan)
  18     darkStain._And(filteredGreen.Cmp(median_fg, CvEnum.CmpType.LessThan))
  19     darkStain._And(fg)
  20
  21     let fgFloat = (fg / 255.0).Convert<Gray, float32>()
  22     let greenWithoutBg = green.Copy()
  23     greenWithoutBg.SetValue(Gray(0.0), fg.Not())
  24
  25     let findSmears (sigma: float) (level: float) : Image<Gray, byte> =
  26         let greenWithoutBgSmoothed = ImgTools.gaussianFilter greenWithoutBg sigma
  27         let fgSmoothed = ImgTools.gaussianFilter fgFloat sigma
  28
  29         let smears = (greenWithoutBg.Mul(fgSmoothed)).Cmp(greenWithoutBgSmoothed.Mul(level), CvEnum.CmpType.LessThan)
  30         smears._And(fg)
  31         smears
  32
  33     { darkStain = darkStain;
  34       stain = findSmears config.stainSigma config.stainLevel
  35       infection = findSmears config.infectionSigma config.infectionLevel }
  36
  37
  38
  39