use green = scaledImg.Item(1)
use red = scaledImg.Item(2)
-
let greenFloat = green.Convert<Gray, float32>()
- let green = gaussianFilter green 1.5
-
- // let RBCSize = Granulometry.findRadius green (10, 100) 0.5
+ let filteredGreen = gaussianFilter green config.preFilterSigma
+ logTime "areaOpen" (fun () -> ImgTools.areaOpen filteredGreen 2000)
- match config.debug with
- | DebugOn output ->
- let dirPath = System.IO.Path.Combine(output, name)
- System.IO.Directory.CreateDirectory dirPath |> ignore
- let buildFileName postfix = System.IO.Path.Combine(dirPath, name + postfix)
+ let RBCSize = Granulometry.findRadius filteredGreen (10, 100) 0.5 |> float
+ let RBCSizeDelta = RBCSize / 3.0
- saveImg green (buildFileName " - green.png")
+ let config = { config with minRBCSize = RBCSize - RBCSizeDelta ; maxRBCSize = RBCSize + RBCSizeDelta }
- let greenMaxima = green.Copy()
- let maxima = ImgTools.findMaxima greenMaxima
- for m in maxima do
- for p in m do
- greenMaxima.Data.[p.Y, p.X, 0] <- 255uy
-
- saveImg greenMaxima (buildFileName " - maxima.png")
-
- logTime "areaOpen" (fun () -> ImgTools.areaOpen green 800)
- saveImg green (buildFileName " - green opened.png")
-
- | _ -> ()
-
- []
- (*
-
- use filteredGreen = (gaussianFilter greenFloat config.doGSigma1) - config.doGLowFreqPercentageReduction * (gaussianFilter greenFloat config.doGSigma2)
+ let filteredGreenFloat = filteredGreen.Convert<Gray, float32>() // Is it neccessary?
use sobelKernel =
new ConvolutionKernelF(array2D [[ 1.0f; 0.0f; -1.0f ]
[ 2.0f; 0.0f; -2.0f ]
[ 1.0f; 0.0f; -1.0f ]], Point(0, 0))
- use xEdges = filteredGreen.Convolution(sobelKernel).Convert<Gray, float>()
- use yEdges = filteredGreen.Convolution(sobelKernel.Transpose()).Convert<Gray, float>()
+ use xEdges = filteredGreenFloat.Convolution(sobelKernel).Convert<Gray, float>()
+ use yEdges = filteredGreenFloat.Convolution(sobelKernel.Transpose()).Convert<Gray, float>()
let xEdgesData = xEdges.Data
let yEdgesData = yEdges.Data
logTime "Finding edges" (fun() -> thin edges)
logTime "Removing small connected components from thinning" (fun () -> removeArea edges 12)
- let kmediansResults = logTime "Finding foreground (k-medians)" (fun () -> KMedians.kmedians filteredGreen 1.0)
+ let kmediansResults = logTime "Finding foreground (k-medians)" (fun () -> KMedians.kmedians filteredGreenFloat 1.0)
- let parasites = ParasitesMarker.find greenFloat filteredGreen kmediansResults config
+ let parasites = ParasitesMarker.find greenFloat filteredGreenFloat kmediansResults config
let allEllipses, ellipses = logTime "Finding ellipses" (fun () ->
let matchingEllipses = Ellipse.find edges xEdges yEdges config
drawCells imgCells' true cells
saveImg imgCells' (buildFileName " - cells - full.png")
- saveImg (normalizeAndConvert filteredGreen) (buildFileName " - filtered.png")
+ let filteredGreenMaxima = gaussianFilter green config.preFilterSigma
+ for m in ImgTools.findMaxima filteredGreenMaxima do
+ ImgTools.drawPoints filteredGreenMaxima m 255uy
+ saveImg filteredGreenMaxima (buildFileName " - filtered - maxima.png")
+
+ saveImg filteredGreen (buildFileName " - filtered.png")
saveImg blue (buildFileName " - blue.png")
saveImg green (buildFileName " - green.png")
saveImg red (buildFileName " - red.png")
| _ -> ()
- cells*)
+ cells