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L

L - Variable in class Jampack.Zludpp
The lower triangular matrix L
length(double[]) - Method in class RdcPanda.ModelRdc
compute the length of a vector v1.
length(double[]) - Method in class RdcPanda.Pdb
Length.
length(double[]) - Method in class RdcPanda.Peak
Length.
length(double[]) - Method in class RdcPanda.PhiPsi
calculate the length between two vectors v1 and v2 The returned angle is the [0,Pi] region.
length(double[]) - Method in class RdcPanda.ppGlobal
calculate the length between two vectors v1 and v2 The returned angle is the [0,Pi] region.
length(double[]) - Method in class RdcPanda.vdw
Length.
LongRangeNoeReader(String, double, String) - Method in class RdcPanda.Noe
long reange noe read from cyana format.
LongRangeNoeReader2(String) - Method in class RdcPanda.Noe
long reange noe read from cyana format.
LongRangeNoeReaderTestLW(String) - Method in class RdcPanda.Noe
This is an old function.
longTurn(Vector, Vector, Vector, Vector, Vector, Vector, double, double, int, int, double, double) - Method in class RdcPanda.PhiPsi
Compute the loop (18 - 23) by randomly changing the 18, 19 backbone dihedral angles.
loop34To41(double[][], double, double, int, int, double[], double[], double[], double[], double[], double[], Vector, double[]) - Method in class RdcPanda.PhiPsi
Loop34 to41.
loop50To56(Vector, Vector, Vector, Vector, Vector, Vector, double, double, int, int, double, double) - Method in class RdcPanda.PhiPsi
Compute the loop L50-L56 given the orientation of the peptide planes L50 and L56.
loop59To65(double[][], double, double, int, int, double[], double[], double[], double[], double[], double[], Vector, double[]) - Method in class RdcPanda.PhiPsi
Compute the loop Y59 <--> K63 given the absolute coordinates for Y59 and E64.
LoopAllComputation(int, int) - Method in class RdcPanda.Goal
compute the loop structures
LoopAllComputationBackward(int, int) - Method in class RdcPanda.Goal
compute the loop structures from backward direction
LoopAllComputationBiDirection(int, int) - Method in class RdcPanda.Goal
compute the loop structures from both direction
LoopComputFromNOEPatterns(double, double, double, Vector, Vector, Vector, String, Vector, double, int, int) - Method in class RdcPanda.Pdb
Compute a structure, given the backbone and rotamers at all residue positions.
LoopCurResPhiPsiExactSearch(Vector, int, int, int, double, double, Vector, Vector, boolean) - Method in class RdcPanda.Goal
compute possible phi/psi angles for current residue using RDC-EXACT algorithm.
LoopCurResPhiPsiExactSearchBackward(Vector, int, int, int, double, double, Vector, Vector, boolean) - Method in class RdcPanda.Goal
compute possible phi/psi angles for current residue using RDC-EXACT algorithm.
LoopCurResPhiPsiGridSearch(Vector, int, int, int, double, double, Vector, Vector, boolean) - Method in class RdcPanda.Goal
compute possible phi/psi angles for current residue when the RDCs are missing.
LoopCurResPhiPsiGridSearchBackward(Vector, int, int, int, double, double, Vector, Vector, boolean) - Method in class RdcPanda.Goal
compute possible phi/psi angles for current residue when the RDCs are missing.
LoopFirstHalfResPsiGridSearch(int, int, double, Vector, Vector) - Method in class RdcPanda.Goal
compute possible psi angles for the first half residue.
LoopLastHalfResPsiGridSearch(int, int, double, double, Vector, Vector) - Method in class RdcPanda.Goal
compute possible psi angles for the last half residue, which will be used to compute the second half fragment in a backward way.
LoopLocalGapClosure(Vector, int, int) - Method in class RdcPanda.Goal
use the gradient search to close the gap, while statisfying the NOE restraints
LoopLocalGapClosureBackward(Vector, int, int) - Method in class RdcPanda.Goal
use the gradient search to close the gap, for backward computation
Loops - Class in RdcPanda
 
Loops() - Constructor for class RdcPanda.Loops
 

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