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E

EigenvalueDecomposition - Class in Maths
Eigenvalues and eigenvectors of a real matrix.
EigenvalueDecomposition(SquareMatrix) - Constructor for class Maths.EigenvalueDecomposition
Check for symmetry, then construct the eigenvalue decomposition
EigenvalueDecomposition.ConvergenceException - Exception in Maths
Exception for when the Eigendecomposition does not converge
EigenvalueDecomposition.ConvergenceException() - Constructor for exception Maths.EigenvalueDecomposition.ConvergenceException
Default constructor
eigValues() - Method in class Maths.SquareMatrix
Calculates the Eigenvalues.
eigValuesDiag() - Method in class Maths.SquareMatrix
Calculates the Eigenvalues.
eigVectors() - Method in class Maths.SquareMatrix
Calculates the Eigenvectors.
equals(Object) - Method in class Alignments.Site
 
equals(Object) - Method in class Maths.SquareMatrix
 
equals(Object) - Method in class Trees.Branch
 
equals(Object) - Method in class Utils.ArrayMap
 
evaluate(String, Double[]) - Method in interface Maths.FunctionParser
A function that evaluates all the functions implemented
Example - Class in Executable
An example executable.
Exceptions - package Exceptions
Provides exceptions that are common across the package.
Executable - package Executable
Provides a general driver executable and an example executable
exp() - Method in class Maths.SquareMatrix
Calculates e^A where A is the current matrix and returns a new matrix as the result
expMult(double) - Method in class Maths.SquareMatrix
Calculates e^Ax where A is this matrix and returns a new matrix as the result.

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