Ejemplo n.º 1
0
 /// <summary>
 /// Constructor to create the chromophore spectrum
 /// </summary>
 /// <param name="wavelengths">A list of wavelengths</param>
 /// <param name="spectrum">A list of spectral values</param>
 /// <param name="name">The name of the chromophore absorber</param>
 /// <param name="coeffType">The chromophore coefficient type</param>
 /// <param name="absUnits">The absorption coefficient units</param>
 /// <param name="molarUnit">The molar units</param>
 /// <param name="wavelengthUnit">The wavelength units</param>
 public ChromophoreSpectrum(List <double> wavelengths, List <double> spectrum, string name, ChromophoreCoefficientType coeffType, AbsorptionCoefficientUnit absUnits, MolarUnit molarUnit, WavelengthUnit wavelengthUnit)
 {
     ChromophoreCoefficientType = coeffType;
     AbsorptionCoefficientUnit  = absUnits;
     WavelengthUnit             = wavelengthUnit;
     MolarUnit   = molarUnit;
     Name        = name;
     Spectrum    = spectrum;
     Wavelengths = wavelengths;
 }
        private ChromophoreSpectrum CreateChromophoreSpectrum()
        {
            string name = "Melanin";
            AbsorptionCoefficientUnit muaUnit = AbsorptionCoefficientUnit.InverseMillimeters;
            MolarUnit molarUnit = MolarUnit.None;
            ChromophoreCoefficientType coeffType = ChromophoreCoefficientType.FractionalAbsorptionCoefficient;

            // populate list of wavelengths
            List <double> wavelengths = new List <double>();

            wavelengths.Add(0.0);
            wavelengths.Add(1.0);
            wavelengths.Add(2.0);

            // populate list of values
            List <double> values = new List <double>();

            values.Add(0.1);
            values.Add(1.1);
            values.Add(2.1);

            return(new ChromophoreSpectrum(wavelengths, values, name, coeffType, muaUnit, molarUnit, WavelengthUnit.Nanometers));
        }
Ejemplo n.º 3
0
        private ChromophoreSpectrumDictionary CreateDictionary()
        {
            string name = "Melanin";
            AbsorptionCoefficientUnit muaUnit = AbsorptionCoefficientUnit.InverseMillimeters;
            MolarUnit molarUnit = MolarUnit.MicroMolar;
            ChromophoreCoefficientType coeffType = ChromophoreCoefficientType.FractionalAbsorptionCoefficient;

            // populate list of wavelengths
            List <double> wavelengths = new List <double>();

            wavelengths.Add(0.0);
            wavelengths.Add(1.0);
            wavelengths.Add(2.0);

            // populate list of values
            List <double> values = new List <double>();

            values.Add(0.1);
            values.Add(1.1);
            values.Add(2.1);

            ChromophoreSpectrum chromophoreSpectrum = new ChromophoreSpectrum(wavelengths, values, name, coeffType, muaUnit, molarUnit, WavelengthUnit.Nanometers);

            var testDictionary = new ChromophoreSpectrumDictionary();

            testDictionary.Add(chromophoreSpectrum.Name, chromophoreSpectrum);

            name      = "HbO2";
            muaUnit   = AbsorptionCoefficientUnit.InverseMillimeters;
            molarUnit = MolarUnit.MicroMolar;
            coeffType = ChromophoreCoefficientType.MolarAbsorptionCoefficient;

            chromophoreSpectrum = new ChromophoreSpectrum(wavelengths, values, name, coeffType, muaUnit, molarUnit, WavelengthUnit.Nanometers);
            testDictionary.Add(chromophoreSpectrum.Name, chromophoreSpectrum);

            return(testDictionary);
        }
Ejemplo n.º 4
0
        /// <summary>
        /// Method to convert coefficient values
        /// </summary>
        /// <param name="CoefficientValue">The coefficient value to convert</param>
        /// <param name="Unit">An enum representing the units of the value to convert</param>
        /// <param name="MolarUnit">An enum to represent a molar based coefficient</param>
        /// <returns>The converted value as a double</returns>
        public static double ConvertCoefficient(this double CoefficientValue, AbsorptionCoefficientUnit Unit, MolarUnit MolarUnit)
        {
            double coeff;

            switch (Unit)
            {
            case AbsorptionCoefficientUnit.InverseMillimeters:
            default:
                coeff = CoefficientValue;
                break;

            case AbsorptionCoefficientUnit.InverseMeters:
                coeff = CoefficientValue / 1000;     //10^3
                break;

            case AbsorptionCoefficientUnit.InverseCentimeters:
                coeff = CoefficientValue / 10;
                break;

            case AbsorptionCoefficientUnit.InverseMicrometers:
                coeff = CoefficientValue * 1000;     //10^3
                break;
            }

            //molar coefficient applied
            switch (MolarUnit)
            {
            case MolarUnit.MicroMolar:
            default:
                return(coeff);

            case MolarUnit.MilliMolar:
                return(coeff / 1000);    //10^3

            case MolarUnit.Molar:
                return(coeff / 1000000);    //10^6

            case MolarUnit.NanoMolar:
                return(coeff * 1000);
            }
        }
Ejemplo n.º 5
0
        /// <summary>
        /// Passes the molar unit enum and the absorption coefficient unit enum and returns it as a string
        /// </summary>
        /// <param name="molarUnit">The molar unit enum</param>
        /// <param name="absorptionCoefficientUnit">an absorption coefficient enum</param>
        /// <returns>A string representing the molar units</returns>
        public static string getSpectralUnit(MolarUnit molarUnit, AbsorptionCoefficientUnit absorptionCoefficientUnit)
        {
            string mU;
            string aCU;
            string sU;

            switch (molarUnit)
            {
            case MolarUnit.None:
                mU = "";
                break;

            case MolarUnit.Molar:
                mU = "M";
                break;

            case MolarUnit.MilliMolar:
                mU = "mM";
                break;

            case MolarUnit.MicroMolar:
                mU = "uM";
                break;

            case MolarUnit.NanoMolar:
                mU = "nM";
                break;

            default:
                throw new Exception("Unknown molar unit");
            }

            switch (absorptionCoefficientUnit)
            {
            case AbsorptionCoefficientUnit.InverseCentimeters:
                aCU = "cm";
                break;

            case AbsorptionCoefficientUnit.InverseMeters:
                aCU = "m";
                break;

            case AbsorptionCoefficientUnit.InverseMicrometers:
                aCU = "um";
                break;

            case AbsorptionCoefficientUnit.InverseMillimeters:
                aCU = "mm";
                break;

            default:
                throw new Exception("Unknown absorption coefficient unit");
            }
            if (molarUnit == MolarUnit.None)
            {
                sU = "1/" + aCU;
            }
            else
            {
                sU = "1/(" + aCU + "*" + mU + ")";
            }
            return(sU);
        }
Ejemplo n.º 6
0
 /// <summary>
 /// Constructor to create the chromophore spectrum starting with empty lists
 /// </summary>
 /// <param name="name">The name of the chromophore absorber</param>
 /// <param name="coeffType">The chromophore coefficient type</param>
 /// <param name="absUnits">The absorption coefficient units</param>
 /// <param name="molarUnit">The molar units</param>
 /// <param name="wavelengthUnit">The wavelength units</param>
 public ChromophoreSpectrum(string name, ChromophoreCoefficientType coeffType, AbsorptionCoefficientUnit absUnits, MolarUnit molarUnit, WavelengthUnit wavelengthUnit)
     : this(new List <double>(), new List <double>(), name, coeffType, absUnits, molarUnit, wavelengthUnit)
 {
 }