Spatial
All functions and utilities relating to spatial simulation
Attributes
- Graph
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- Supertypes
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class Objecttrait Matchableclass Any
- Self type
-
Spatial.type
Members list
Value members
Concrete methods
The 1d spatial CLE algorithm
The 1d spatial CLE algorithm
Value parameters
- d
-
A vector of diffusion coefficients - one for each species
- dt
-
Time step of the simulation algorithm
- n
-
A
Spn[DoubleState]model for simulation
Attributes
- Returns
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A function with type signature
(x0: GenSeq[DoubleState], t0: Time, deltat: Time) => GenSeq[DoubleState]which will simulate the state of the system at timet0+deltatgiven initial statex0and initial timet0
The 2d spatial CLE algorithm
The 2d spatial CLE algorithm
Value parameters
- d
-
A vector of diffusion coefficients - one for each species
- dt
-
Time step of the simulation algorithm
- n
-
A
Spn[DoubleState]model for simulation
Attributes
- Returns
-
A function with type signature
(x0: PMatrix[DoubleState], t0: Time, deltat: Time) => PMatrix[DoubleState]which will simulate the state of the system at timet0+deltatgiven initial statex0and initial timet0
The 1d spatial Euler algorithm
The 1d spatial Euler algorithm
Value parameters
- d
-
A vector of diffusion coefficients - one for each species
- dt
-
Time step of the simulation algorithm
- n
-
A
Spn[DoubleState]model for simulation
Attributes
- Returns
-
A function with type signature
(x0: GenSeq[DoubleState], t0: Time, deltat: Time) => GenSeq[DoubleState]which will simulate the state of the system at timet0+deltatgiven initial statex0and initial timet0
The 2d spatial Euler algorithm
The 2d spatial Euler algorithm
Value parameters
- d
-
A vector of diffusion coefficients - one for each species
- dt
-
Time step of the simulation algorithm
- n
-
A
Spn[DoubleState]model for simulation
Attributes
- Returns
-
A function with type signature
(x0: PMatrix[DoubleState], t0: Time, deltat: Time) => PMatrix[DoubleState]which will simulate the state of the system at timet0+deltatgiven initial statex0and initial timet0
The 1d spatial Gillespie algorithm
The 1d spatial Gillespie algorithm
Value parameters
- d
-
A vector of diffusion coefficients - one for each species
- maxH
-
Threshold for terminating simulation early
- minH
-
Threshold for treating hazard as zero
- n
-
A
Spn[IntState]model for simulation
Attributes
- Returns
-
A function with type signature
(x0: GenSeq[IntState], t0: Time, deltat: Time) => GenSeq[IntState]which will simulate the state of the system at timet0+deltatgiven initial statex0and initial timet0
The 2d spatial Gillespie algorithm
The 2d spatial Gillespie algorithm
Value parameters
- d
-
A vector of diffusion coefficients - one for each species
- maxH
-
Threshold for terminating simulation early
- minH
-
Threshold for treating hazard as zero
- n
-
A
Spn[IntState]model for simulation
Attributes
- Returns
-
A function with type signature
(x0: PMatrix[IntState], t0: Time, deltat: Time) => PMatrix[IntState]which will simulate the state of the system at timet0+deltatgiven initial statex0and initial timet0
Plot the output of a 1d time series simulation. Called solely for the side-effect of rendering a plot on the console.
Plot the output of a 1d time series simulation. Called solely for the side-effect of rendering a plot on the console.
Value parameters
- ts
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Output from a 1d spatial time series simulation