| DebugOff
| DebugOn of string // Output directory.
-type Parameters = {
- rbcDiameter: float<μm>
- resolution: float<ppi>
+type Parameters =
+ {
+ rbcDiameter : float<μm>
+ resolution : float<ppi>
- averageColor_BG: float32 * float32 * float32 // R * G * B.
- averageColor_RBC: float32 * float32 * float32 // R * G * B.
- averageColor_Parasite: float32 * float32 * float32 // R * G * B.
+ ratioAreaPaleCenter : float32 // The area of the second opening is 'ratioSecondAreaOpen' * mean RBC area. It's applied only if greater than 'initialAreaOpen'.
- ratioAreaPaleCenter: float32 // The area of the second opening is 'ratioSecondAreaOpen' * mean RBC area. It's applied only if greater than 'initialAreaOpen'.
+ granulometryRange : float32 // The radius will be seeked from radius - granulometryRange * radius to radius + granulometryRange * radius.
- granulometryRange: float32 // The radius will be seeked from radius - granulometryRange * radius to radius + granulometryRange * radius.
+ minRbcRadius : float32 // Factor of the mean RBC radius.
+ maxRbcRadius : float32 // Factor of the mean RBC radius.
- minRbcRadius: float32 // Factor of the mean RBC radius.
- maxRbcRadius: float32 // Factor of the mean RBC radius.
+ LPFStandardDeviationParasite : float<μm> // Sigma parameter of the gaussian to remove the high frequency noise.
+ LPFStandardDeviationRBC : float<μm>
- LPFStandardDeviationParasite: float<μm> // Sigma parameter of the gaussian to remove the high frequency noise.
- LPFStandardDeviationRBC: float<μm>
+ // Ellipse.
+ nbPickElementsMin : int
+ factorNbValidPick : float // The number of computed ellipse per edge pixel.
+ factorNbMaxPick : float
- // Ellipse.
- factorNbPick: float // The number of computed ellipse per edge pixel.
+ // Parasites detection.
+ darkStainLevel : float // Lower -> more sensitive. Careful about illumination on the borders.
+ maxDarkStainRatio : float // When a cell must own less than this ratio to be a RBC.
- // Parasites detection.
- darkStainLevel: float // Lower -> more sensitive. Careful about illumination on the borders.
- maxDarkStainRatio: float // When a cell must own less than this ratio to be a RBC.
+ parasiteRadiusRatio : float32 // The ratio of the parasite radius of the RBC radius.
+ minimumParasiteAreaRatio : float32 // Factor of a RBC area. 0.5 means the half of RBC area.
- parasiteRadiusRatio: float32 // The ratio of the parasite radius of the RBC radius.
- minimumParasiteAreaRatio: float32 // Factor of a RBC area. 0.5 means the half of RBC area.
+ cytoplasmSizeRatio : float32
+ cytoplasmSensitivity : float // between 0 (the least sensitive) and 1 (the most sensitive).
- cytoplasmSensitivity: float // between 0 (the least sensitive) and 1 (the most sensitive).
+ nucleusAreaRatio : float32 // Factor of a RBC area. 0.5 means the half of RBC area.
+ infectionSensitivity : float // between 0 (the least sensitive) and 1 (the most sensitive).
- nucleusAreaRatio: float32 // Factor of a RBC area. 0.5 means the half of RBC area.
- infectionSensitivity: float // between 0 (the least sensitive) and 1 (the most sensitive).
+ // [<Obsolete>] standardDeviationMaxRatio: float // The standard deviation of the pixel values of a cell can't be greater than standardDeviationMaxRatio * global standard deviation
+ minimumCellAreaFactor : float32 // Factor of the mean RBC area. A cell with an area below this will be rejected.
+ }
- standardDeviationMaxRatio: float // The standard deviation of the pixel values of a cell can't be greater than standardDeviationMaxRatio * global standard deviation
- minimumCellAreaFactor: float32 // Factor of the mean RBC area. A cell with an area below this will be rejected.
-}
+let defaultParameters =
+ {
+ rbcDiameter = 7.5<μm>
+ resolution = 230.e3<ppi> // 230.e3<ppi> Correspond to 50X.
-let defaultParameters = {
- rbcDiameter = 8.<μm>
- resolution = 220.e3<ppi> // 220.e3<ppi> Correspond to 50X.
+ ratioAreaPaleCenter = 2.f / 5.f // The ratio between an RBC area and the area of the its pale center.
- averageColor_BG = 113.3f, 135.3f, 150.3f
- averageColor_RBC = 94.7f, 80.7f, 99.3f
- averageColor_Parasite = 76.f, 58.f, 94.f
+ granulometryRange = 0.5f
- (*averageColor_BG = 179.f, 148.f, 121.f
- averageColor_RBC = 141.f, 96.f, 83.f
- averageColor_Parasite = 123.f, 89.f, 83.f*)
+ minRbcRadius = -0.23f
+ maxRbcRadius = 0.23f
- ratioAreaPaleCenter = 2.f / 5.f // The ratio between an RBC area and the area of the its pale center.
+ LPFStandardDeviationParasite = 0.15<μm>
+ LPFStandardDeviationRBC = 0.22<μm>
- granulometryRange = 0.5f
+ nbPickElementsMin = 10
+ factorNbValidPick = 0.06 //1.0
+ factorNbMaxPick = 4.
- minRbcRadius = -0.3f
- maxRbcRadius = 0.3f
+ darkStainLevel = 1.
+ maxDarkStainRatio = 0.1 // 10 %
- LPFStandardDeviationParasite = 0.15<μm>
- LPFStandardDeviationRBC = 0.2<μm>
+ parasiteRadiusRatio = 0.5f // 50 %
+ minimumParasiteAreaRatio = 0.02f // 2 %
- factorNbPick = 1.0
+ cytoplasmSizeRatio = 1.f / 5.f
+ cytoplasmSensitivity = 0.96
- darkStainLevel = 0.25
- maxDarkStainRatio = 0.1 // 10 %
+ nucleusAreaRatio = 0.01f // 1.0 %
+ infectionSensitivity = 0.92
- parasiteRadiusRatio = 0.5f // 40 %
+ // standardDeviationMaxRatio = 0.6 // Obsolete.
+ minimumCellAreaFactor = 0.4f
+ }
- minimumParasiteAreaRatio = 0.02f // 2 %
- cytoplasmSensitivity = 0.96 // 1) 0.91, 2) 0.92
-
- nucleusAreaRatio = 0.01f // 1.0 %
- infectionSensitivity = 0.9 // 1) 0.93, 2) 0.94
-
- standardDeviationMaxRatio = 0.5 // 0.5
- minimumCellAreaFactor = 0.4f }
-
-type RBCRadius (radius: float32, parameters: Parameters) =
+type RBCRadius (radius : float32, parameters : Parameters) =
member this.Pixel = radius
member this.μm : float<μm> =
1.<px> * (float radius) / parameters.resolution |> inchToμm
member this.MinArea = parameters.minimumCellAreaFactor * this.Area
member this.ParasiteRadius = parameters.parasiteRadiusRatio * radius
+ member this.CytoplasmSize = parameters.cytoplasmSizeRatio * radius
member this.NucleusArea = parameters.nucleusAreaRatio * this.Area
member this.MinimumParasiteArea = parameters.minimumParasiteAreaRatio * this.Area
- override this.ToString() =
+ override this.ToString () =
sprintf "%d px (%.1f μm)" (Utils.roundInt <| 2.f * radius) (2. * this.μm)
-type Config (param: Parameters) =
- let RBCadiusInPixels (rbcDiameter
: float<μm>) (resolution: float<ppi>) : float32 =
- let rbcRadiusInch: float<inch> = (μmToInch rbcDiameter) / 2.
- let rbcRadiusPx: float<px> = resolution * rbcRadiusInch
+type Config (param : Parameters) =
+ let RBCadiusInPixels (rbcDiameter
: float<μm>) (resolution : float<ppi>) : float32 =
+ let rbcRadiusInch : float<inch> = (μmToInch rbcDiameter) / 2.
+ let rbcRadiusPx
: float<px> = resolution * rbcRadiusInch
float32 rbcRadiusPx
- let mutable parameters: Parameters = param
- let mutable rbcRadiusByResolution = RBCRadius(RBCadiusInPixels parameters.rbcDiameter parameters.resolution, parameters)
- let mutable rbcRadius = RBCRadius(0.f, parameters)
+ let mutable parameters : Parameters = param
+ let mutable rbcRadiusByResolution = RBCRadius (RBCadiusInPixels parameters.rbcDiameter parameters.resolution, parameters)
+ let mutable rbcRadius = RBCRadius (0.f, parameters)
- new () = Config(defaultParameters)
+ new () = Config defaultParameters
member this.Parameters
- with get() = parameters
- and set(param) =
+ with get () = parameters
+ and set param =
parameters <- param
- rbcRadiusByResolution <- RBCRadius(RBCadiusInPixels parameters.rbcDiameter parameters.resolution, param)
- rbcRadius <- RBCRadius(rbcRadius.Pixel, param)
+ rbcRadiusByResolution <- RBCRadius (RBCadiusInPixels parameters.rbcDiameter parameters.resolution, param)
+ rbcRadius <- RBCRadius (rbcRadius.Pixel, param)
member val Debug = DebugOff with get, set
member this.LPFStandardDeviationParasite =
- let stdDeviation: float<px> = (μmToInch parameters.LPFStandardDeviationParasite) * parameters.resolution
+ let stdDeviation
: float<px> = (μmToInch parameters.LPFStandardDeviationParasite) * parameters.resolution
float stdDeviation
member this.LPFStandardDeviationRBC =
- let stdDeviation: float<px> = (μmToInch parameters.LPFStandardDeviationRBC) * parameters.resolution
+ let stdDeviation
: float<px> = (μmToInch parameters.LPFStandardDeviationRBC) * parameters.resolution
float stdDeviation
member this.RBCRadiusByResolution = rbcRadiusByResolution
member this.RBCRadius = rbcRadius
- member this.SetRBCRadius (radiusPixel: float32) =
- rbcRadius <- RBCRadius(radiusPixel, parameters)
+ member this.SetRBCRadius (radiusPixel : float32) =
+ rbcRadius <- RBCRadius (radiusPixel, parameters)
member this.Copy () =
- this.MemberwiseClone() :?> Config
-
+ this.MemberwiseClone () :?> Config
+
+ override this.ToString () =
+ $"{{{nameof Config}: " +
+ $"{nameof this.LPFStandardDeviationParasite} = {this.LPFStandardDeviationParasite}, " +
+ $"{nameof this.LPFStandardDeviationRBC} = {this.LPFStandardDeviationRBC}, " +
+ $"{nameof this.RBCRadiusByResolution} = {this.RBCRadiusByResolution}, " +
+ $"{nameof this.RBCRadius} = {this.RBCRadius}, " +
+ $"{nameof this.Parameters} = {this.Parameters}}}"
projects / master-thesis.git / blobdiff