PhyloTree.SequenceSimulation.IndelModel Class Reference

Represents a model for sequence insertion/deletion. More...

Public Member Functions
	IndelModel (double insertionRate, double deletionRate, IDiscreteDistribution insertionSizeDistribution, IDiscreteDistribution deletionSizeDistribution)
	Creates a new IndelModel with the specified insertion rate, deletion rate, insertion size distribution and deletion size distribution. More...
	IndelModel (double indelRate, IDiscreteDistribution indelSizeDistribution)
	Creates a new IndelModel with the specified rate and size distribution for insertions and deletions. More...
	IndelModel (double insertionRate, double deletionRate, IDiscreteDistribution indelSizeDistribution)
	Creates a new IndelModel with the specified insertion rate, deletion rate, and size distribution for insertions and deletions. More...
	IndelModel (double indelRate, IDiscreteDistribution insertionSizeDistribution, IDiscreteDistribution deletionSizeDistribution)
	Creates a new IndelModel with the specified rate for insertions and deletions, insertion size distribution and deletion size distribution. More...

Properties
double	InsertionRate [get]
	The rate of insertions, expressed as a multiple of the rate of sequence mutation. More...
double	DeletionRate [get]
	The rate of deletions, expressed as a multiple of the rate of sequence mutation. More...
IDiscreteDistribution	InsertionSizeDistribution [get]
	The size distribution for insertions. More...
IDiscreteDistribution	DeletionSizeDistribution [get]
	The size distribution for deletions. More...

Detailed Description

Represents a model for sequence insertion/deletion.

Definition at line 8 of file IndelModel.cs.

Constructor & Destructor Documentation

IndelModel() [1/4]

PhyloTree.SequenceSimulation.IndelModel.IndelModel	(	double	insertionRate,
		double	deletionRate,
		IDiscreteDistribution	insertionSizeDistribution,
		IDiscreteDistribution	deletionSizeDistribution
	)

Creates a new IndelModel with the specified insertion rate, deletion rate, insertion size distribution and deletion size distribution.

Parameters

insertionRate	The insertion rate, expressed as a multiple of the rate of sequence mutation.
deletionRate	The deletion rate, expressed as a multiple of the rate of sequence mutation.
insertionSizeDistribution	The size distribution for insertions.
deletionSizeDistribution	The size distribution for deletions.

Definition at line 37 of file IndelModel.cs.

IndelModel() [2/4]

PhyloTree.SequenceSimulation.IndelModel.IndelModel	(	double	indelRate,
		IDiscreteDistribution	indelSizeDistribution
	)

Creates a new IndelModel with the specified rate and size distribution for insertions and deletions.

Parameters

indelRate	The insertion/deletion rate, expressed as a multiple of the rate of sequence mutation.
indelSizeDistribution	The size distribution for insertions and deletions.

Definition at line 50 of file IndelModel.cs.

IndelModel() [3/4]

PhyloTree.SequenceSimulation.IndelModel.IndelModel	(	double	insertionRate,
		double	deletionRate,
		IDiscreteDistribution	indelSizeDistribution
	)

Creates a new IndelModel with the specified insertion rate, deletion rate, and size distribution for insertions and deletions.

Parameters

insertionRate	The insertion rate, expressed as a multiple of the rate of sequence mutation.
deletionRate	The deletion rate, expressed as a multiple of the rate of sequence mutation.
indelSizeDistribution	The size distribution for insertions and deletions.

Definition at line 58 of file IndelModel.cs.

IndelModel() [4/4]

PhyloTree.SequenceSimulation.IndelModel.IndelModel	(	double	indelRate,
		IDiscreteDistribution	insertionSizeDistribution,
		IDiscreteDistribution	deletionSizeDistribution
	)

Creates a new IndelModel with the specified rate for insertions and deletions, insertion size distribution and deletion size distribution.

Parameters

indelRate	The insertion/deletion rate, expressed as a multiple of the rate of sequence mutation.
insertionSizeDistribution	The size distribution for insertions.
deletionSizeDistribution	The size distribution for deletions.

Definition at line 66 of file IndelModel.cs.

Property Documentation

DeletionRate

double PhyloTree.SequenceSimulation.IndelModel.DeletionRate

get

The rate of deletions, expressed as a multiple of the rate of sequence mutation.

Definition at line 18 of file IndelModel.cs.

DeletionSizeDistribution

IDiscreteDistribution PhyloTree.SequenceSimulation.IndelModel.DeletionSizeDistribution

get

The size distribution for deletions.

Definition at line 28 of file IndelModel.cs.

InsertionRate

double PhyloTree.SequenceSimulation.IndelModel.InsertionRate

get

The rate of insertions, expressed as a multiple of the rate of sequence mutation.

Definition at line 13 of file IndelModel.cs.

InsertionSizeDistribution

IDiscreteDistribution PhyloTree.SequenceSimulation.IndelModel.InsertionSizeDistribution

get

The size distribution for insertions.

Definition at line 23 of file IndelModel.cs.

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The documentation for this class was generated from the following file:

• SequenceSimulation/IndelModel.cs