/// <summary>
/// Set the absorbers and the scatterer for the specified tissue type
/// </summary>
/// <param name="tissueType">Tissue type</param>
private void SetPredefinedTissueDefinitions(TissueType tissueType) // this data should be in XML
{
TissueType = tissueType;
Absorbers = TissueProvider.CreateAbsorbers(tissueType);
Scatterer = TissueProvider.CreateScatterer(tissueType);
N = 1.4;
}
/// <summary>
/// Sets the values for the first prefactor, the first exponent, the second prefactor and the second exponent for the given tissue type
/// Skin: 1.2, 1.42, 0.0, 0.0
/// Breast (pre-menopause): 0.67, 0.95, 0.0, 0.0
/// Breast (post-menopause): 0.72, 0.58, 0.0, 0.0
/// Brain (white matter): 3.56, 0.84, 0.0, 0.0
/// Brain (grey matter): 0.56, 1.36, 0.0, 0.0
/// Liver: 0.84, 0.55, 0.0, 0.0
/// Custom: 1.0, 0.1, 0.0, 0.0
/// </summary>
/// <param name="tissueType">Tissue type</param>
public void SetTissueType(TissueType tissueType)
{
switch (tissueType)
{
case (TissueType.Skin):
A = 1.2;
B = 1.42;
C = 0.0;
D = 0.0;
break;
case TissueType.BreastPreMenopause:
A = 0.67;
B = 0.95;
C = 0.0;
D = 0.0;
break;
case TissueType.BreastPostMenopause:
A = 0.72;
B = 0.58;
C = 0.0;
D = 0.0;
break;
case (TissueType.BrainWhiteMatter):
A = 3.56;
B = 0.84;
C = 0.0;
D = 0.0;
break;
case (TissueType.BrainGrayMatter):
A = 0.56;
B = 1.36;
C = 0.0;
D = 0.0;
break;
case (TissueType.Liver):
A = 0.84;
B = 0.55;
C = 0.0;
D = 0.0;
break;
case (TissueType.Custom):
A = 1;
B = 0.1;
C = 0.0;
D = 0.0;
break;
default:
throw new ArgumentOutOfRangeException("tissueType");
}
}
/// <summary>
/// Sends a cell to a randomly-selected type-specific tissue.
/// </summary>
/// <param name="cell">The cell to be sent to another tissue.</param>
/// <param name="tissueType">The type of destination tissue.</param>
protected void SendCellToRandomTissue(Cell cell, TissueType tissueType)
{
var typeAddresses =
from address in addressList where (address.Value == tissueType) select address.Key;
var typeCount = typeAddresses.Count();
if (typeCount > 0)
{
int randIx = RandGen.Next(0, typeCount);
SendCell(cell, typeAddresses.ElementAt(randIx));
}
}
/// <summary>
/// Sets the scatterer type for the specified tissue type
/// </summary>
/// <param name="tissueType">Tissue type</param>
public static IScatterer CreateScatterer(TissueType tissueType)
{
switch (tissueType)
{
case TissueType.Skin:
case TissueType.Liver:
case TissueType.BrainWhiteMatter:
case TissueType.BrainGrayMatter:
case TissueType.BreastPreMenopause:
case TissueType.BreastPostMenopause:
case TissueType.Custom:
return(new PowerLawScatterer(tissueType));
case TissueType.IntralipidPhantom:
return(new IntralipidScatterer());
case TissueType.PolystyreneSpherePhantom:
return(new MieScatterer());
default:
throw new ArgumentOutOfRangeException("tissueType");
}
}
/// <summary>
/// Creates a power law scatterer using the specified tissue type
/// </summary>
/// <param name="tissueType">The tissue type as defined by the Enum <see cref="Vts.TissueType">TissueType</see></param>
public PowerLawScatterer(TissueType tissueType)
{
SetTissueType(tissueType);
}
public AddressNotification(Address address, TissueType tissueType, NotifyReason reason)
{
Address = address;
TissueType = tissueType;
Reason = reason;
}
/// <summary>
/// Creates a tissue with the specified tissue type
/// </summary>
/// <param name="tissueType">Tissue type</param>
public Tissue(TissueType tissueType)
{
TissueType = tissueType;
SetPredefinedTissueDefinitions(tissueType);
Name = tissueType.ToString();
}
/// <summary>
/// Creates standard templates lists of absorbers for the specified tissue type
/// </summary>
/// <param name="tissueType">Tissue type</param>
public static IChromophoreAbsorber[] CreateAbsorbers(TissueType tissueType)
{
// todo: this should come from a file...
var defaultAbsorberDictionary = new Dictionary <TissueType, Dictionary <ChromophoreType, double> >
{
//ref: Meglinski, Matcher, Computer Methods and Programs in Biomedicine 70, 2003, 179-186.
{
TissueType.Skin,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 28.4 },
{ ChromophoreType.HbO2, 22.4 },
{ ChromophoreType.H2O, 0.7 },
{ ChromophoreType.Fat, 0.0 },
{ ChromophoreType.Melanin, 0.0051 },
}
},
{
TissueType.BreastPreMenopause,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 6.9 },
{ ChromophoreType.HbO2, 19.6 },
{ ChromophoreType.H2O, 0.345 },
{ ChromophoreType.Fat, 0.41 },
}
},
{
TissueType.BreastPostMenopause,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 3.75 },
{ ChromophoreType.HbO2, 11.25 },
{ ChromophoreType.H2O, 0.205 },
{ ChromophoreType.Fat, 0.585 },
}
},
{
TissueType.BrainWhiteMatter,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 24 },
{ ChromophoreType.HbO2, 56 },
{ ChromophoreType.H2O, 0.80 },
{ ChromophoreType.Fat, 0.12 },
}
},
{
TissueType.BrainGrayMatter,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 24 },
{ ChromophoreType.HbO2, 56 },
{ ChromophoreType.H2O, 0.80 },
{ ChromophoreType.Fat, 0.12 },
}
},
{
TissueType.Liver,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 66 },
{ ChromophoreType.HbO2, 124 },
{ ChromophoreType.H2O, 0.87 },
{ ChromophoreType.Fat, 0.02 },
}
},
{
TissueType.IntralipidPhantom,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Nigrosin, 0.01 }
}
},
{
TissueType.PolystyreneSpherePhantom,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Nigrosin, 0.01 }
}
},
{
TissueType.Custom,
new Dictionary <ChromophoreType, double>
{
{ ChromophoreType.Hb, 20 },
{ ChromophoreType.HbO2, 20 },
{ ChromophoreType.H2O, 0.0 },
{ ChromophoreType.Fat, 0.0 },
{ ChromophoreType.Melanin, 0.0 },
}
}
};
var absorbers = defaultAbsorberDictionary[tissueType]
.Select(kvp => new ChromophoreAbsorber(kvp.Key, kvp.Value))
.ToArray();
return(absorbers);
}
public Tissue(TissueType type)
{
Type = type;
}
public Tissue(TissueType type)
{
Type = type;
}
/// <summary>
/// Sends a cell to a randomly-selected type-specific tissue.
/// </summary>
/// <param name="cell">The cell to be sent to another tissue.</param>
/// <param name="tissueType">The type of destination tissue.</param>
protected void SendCellToRandomTissue(Cell cell, TissueType tissueType)
{
var typeAddresses =
from address in addressList where (address.Value == tissueType) select address.Key;
var typeCount = typeAddresses.Count();
if (typeCount > 0)
{
int randIx = RandGen.Next(0, typeCount);
SendCell(cell, typeAddresses.ElementAt(randIx));
}
}
public AddressNotification(Address address, TissueType tissueType, NotifyReason reason)
{
Address = address;
TissueType = tissueType;
Reason = reason;
}
