A B C D E F G H I J K L M N O P Q R S T U V X Z

E

Eig - Class in Jampack
Eig implements the eigenvalue-vector decomposition of of a square matrix.
Eig(Zmat) - Constructor for class Jampack.Eig
Creates an eigenvalue-vector decomposition of a square matrix A.
EigenvalueDecomposition - Class in RdcPanda
Eigenvalues and eigenvectors of a real matrix.
EigenvalueDecomposition(Matrix, boolean) - Constructor for class RdcPanda.EigenvalueDecomposition
Check for symmetry, then construct the eigenvalue decomposition
EmptyAdjSet() - Method in class RdcPanda.Nasca.Node
 
EmptyMappingSet() - Method in class RdcPanda.Nasca.Node
 
endDist - Variable in class RdcPanda.Goal.TreePdb
 
EnumAllScAsg(Vector) - Method in class RdcPanda.Nasca
enumerate all possible for assignment for sidechain protons in a residue
EnumAllScAsgSaveIntoFile(Vector, Vector, Vector) - Method in class RdcPanda.Nasca
compute all possible one-to-one mapping for all resonances within an interval
Eq(Z) - Method in class Jampack.Z
Resets the real and imaginary parts of a Z to those of another Z.
Eq(double, double) - Method in class Jampack.Z
Resets the real and imaginary parts of a Z.
equGenerate(Vector, Vector, String, String, double) - Method in class RdcPanda.PdbRdc
A method to generate an equation consisting all the different internuclear vectors whose RDC are measured.
eulerFit(Vector<Pdb>, Vector<Dipolar>, Vector<Dipolar>, double, double, double[], double, boolean) - Method in class RdcPanda.PdbRdc
Note: Lincong's has a serious bug.
eulerFit4RDCs(Vector<Pdb>, Vector<Dipolar>, Vector<Dipolar>, Vector<Dipolar>, Vector<Dipolar>, double, double, double[], double, boolean) - Method in class RdcPanda.PdbRdc
Note: Lincong's has a serious bug.
eulerFit_old(Vector, Vector, Vector, double, double, double[], double, boolean) - Method in class RdcPanda.PdbRdc
Compute three Euler angles using two sets of RDC data and the corresponding Saupe elements Basic steps: extract the NH vectors with the corresponding RDC data as an array (for efficiency) For all the values of three Euler angles first compute the new NH directions after the rotation then compute the RDCs and RMSD from the new NH directions.
eulerFitHB(Vector, Vector, Vector, double[], Matrix, double[], double, double, Vector, Vector, Matrix, boolean) - Method in class RdcPanda.PdbRdc
Compute three Euler angles using two sets of RDC data and the corresponding Saupe elements Basic steps: extract the NH vectors with the corresponding RDC data as an array (for efficiency) For all the values of three Euler angles first compute the new NH directions after the rotation then compute the RDCs and RMSD from the new NH directions.
eulerFitPrintEnsemble(Vector<Pdb>, Vector<Dipolar>, Vector<Dipolar>, double, double, double[], double, boolean, double) - Method in class RdcPanda.PdbRdc
print out all pdb orientations in which rdc rmsd is smaler than some threshold, in grid search.
eulerMat(double, double, double) - Method in class RdcPanda.Matrix
A method for generating an euler Matrix from three Euler angles.
EvaluateCandPositions(int, int, Vector, Vector) - Method in class RdcPanda.Goal
evaluate the set of candidate positions based on the known reference structure
ExactSubgraphIsomorphism(Vector, Vector, int[][]) - Method in class RdcPanda.Nasca
compute the exact one-to-one mapping between two graph
Exch(Z) - Method in class Jampack.Z
Interchanges the real and imaginary parts of two Z's.
ExtractAllResonFromNOESY(Vector, double, double, double) - Method in class RdcPanda.Nasca
exact the backbone resonance assignment
extractBackbone(Vector) - Method in class RdcPanda.Pdb
Extract backbone atoms from a PDB file.
ExtractBackboneAsignment(Vector) - Method in class RdcPanda.Nasca
exact the backbone resonance assignment
extractFragment(Vector, int, int, double[], double[]) - Method in class RdcPanda.Pdb
Extract backbone atoms from a PDB file.
extractFragment(Vector, int, int) - Method in class RdcPanda.Pdb
Extract backbone atoms from a PDB file.
extractRestraints(int, int, Vector, Vector, Vector, Vector, double, double) - Method in class RdcPanda.PhiPsi
The method right now may have ERROR! To extract all the sequential restraints (both RDCs and NOEs) involving the backbone nuclei (HA and NH) located in the turn or the loop.
ExtractSideChainAsignment(Vector) - Method in class RdcPanda.Nasca
 
Eye - Class in Jampack
Eye generates a matrix whose diagonal elements are one and whose off diagonal elements are zero.
Eye() - Constructor for class Jampack.Eye
 

A B C D E F G H I J K L M N O P Q R S T U V X Z