Interface DnaFoldingProvider

All Superinterfaces:

AlgorithmProvider

All Known Implementing Classes:

StandardDnaFoldingProvider

public interface DnaFoldingProvider
extends AlgorithmProvider

Provider for molecular folding algorithms.

Method Summary

Modifier and Type	Method	Description
double	calculateEnergy(double[][] points, String sequence)
double	calculateEnergy(double[] flatPoints, String sequence)
float	calculateEnergy(float[][] points, String sequence)
float	calculateEnergy(float[] flatPoints, String sequence)
Real	calculateEnergy(List<Real[]> points, String sequence)	Calculates energy for a 3D structure.
void	step(double[][] points, String sequence, double temperature, long seed)
void	step(double[] flatPoints, String sequence, double temperature, long seed)
void	step(float[][] points, String sequence, float temperature, long seed)
void	step(float[] flatPoints, String sequence, float temperature, long seed)
void	step(List<Real[]> points, String sequence, double temperature, long seed)	Performs a single Monte-Carlo step.

Methods inherited from interface AlgorithmProvider

description, getAlgorithmType, getMetadata, getName, getPriority, isAvailable, score, shutdown

Method Details

calculateEnergy

Real calculateEnergy(List<Real[]> points,
 String sequence)

Calculates energy for a 3D structure.

calculateEnergy

double calculateEnergy(double[][] points,
 String sequence)

calculateEnergy

float calculateEnergy(float[][] points,
 String sequence)

calculateEnergy

double calculateEnergy(double[] flatPoints,
 String sequence)

calculateEnergy

float calculateEnergy(float[] flatPoints,
 String sequence)

step

void step(List<Real[]> points,
 String sequence,
 double temperature,
 long seed)

Performs a single Monte-Carlo step.

step

void step(double[][] points,
 String sequence,
 double temperature,
 long seed)

step

void step(float[][] points,
 String sequence,
 float temperature,
 long seed)

step

void step(double[] flatPoints,
 String sequence,
 double temperature,
 long seed)

step

void step(float[] flatPoints,
 String sequence,
 float temperature,
 long seed)