Uses of Class
jgromacs.data.Angle

Packages that use Angle

jgromacs.analysis

jgromacs.analysis is a collection of classes providing static methods for various analysis tasks

Uses of Angle in jgromacs.analysis

Methods in jgromacs.analysis that return Angle

static Angle	Angles.getAngleBetweenPlanes(Point3D A, Point3D B, Point3D C, Point3D D) Calculates the angle between two planes defined by points A, B, C and points B, C, D
static Angle	Angles.getAngleBetweenVectors(Point3D v1, Point3D v2) Calculates the angle between two vectors
static Angle	Angles.getDihedralChi1(Structure s, int i) Calculates side chain dihedral angle Chi1 of residue #i of a structure The residue can be ARG,ASN,ASP,CYS,GLN,GLU,HIS,ILE,LEU,LYS,MET,PHE,PRO,SER,THR,TRP,TYR or VAL
static Angle	Angles.getDihedralChi2(Structure s, int i) Calculates side chain dihedral angle Chi2 of residue #i of a structure The residue can only be ARG,ASN,ASP,GLN,GLU,HIS,ILE,LEU,LYS,MET,PHE,PRO,TRP or TYR
static Angle	Angles.getDihedralChi3(Structure s, int i) Calculates side chain dihedral angle Chi3 of residue #i of a structure The residue can only be ARG,GLN,GLU,LYS or MET
static Angle	Angles.getDihedralChi4(Structure s, int i) Calculates side chain dihedral angle Chi4 of residue #i of a structure The residue can only be ARG or LYS
static Angle	Angles.getDihedralChi5(Structure s, int i) Calculates side chain dihedral angle Chi5 of residue #i of a structure The residue can only be ARG
static Angle	Angles.getDihedralOmega(Structure s, int i) Calculates dihedral angle Omega of residue #i of a structure
static Angle	Angles.getDihedralPhi(Structure s, int i) Calculates dihedral angle Phi of residue #i of a structure
static Angle	Angles.getDihedralPsi(Structure s, int i) Calculates dihedral angle Psi of residue #i of a structure

Methods in jgromacs.analysis that return types with arguments of type Angle

static java.util.ArrayList<Angle>	Angles.getDihedralChi1TimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Chi1 of residue #i over a trajectory The residue can be ARG,ASN,ASP,CYS,GLN,GLU,HIS,ILE,LEU,LYS,MET,PHE,PRO,SER,THR,TRP,TYR or VAL
static java.util.ArrayList<Angle>	Angles.getDihedralChi2TimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Chi2 of residue #i over a trajectory The residue can only be ARG,ASN,ASP,GLN,GLU,HIS,ILE,LEU,LYS,MET,PHE,PRO,TRP or TYR
static java.util.ArrayList<Angle>	Angles.getDihedralChi3TimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Chi3 of residue #i over a trajectory The residue can only be ARG,GLN,GLU,LYS or MET
static java.util.ArrayList<Angle>	Angles.getDihedralChi4TimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Chi4 of residue #i over a trajectory The residue can only be ARG or LYS
static java.util.ArrayList<Angle>	Angles.getDihedralChi5TimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Chi5 of residue #i over a trajectory The residue can only be ARG
static java.util.ArrayList<Angle>	Angles.getDihedralOmegaTimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Omega of residue #i over a trajectory
static java.util.ArrayList<Angle>	Angles.getDihedralPhiTimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Phi of residue #i over a trajectory
static java.util.ArrayList<Angle>	Angles.getDihedralPsiTimeSeries(Trajectory t, int i) Calculates the time series of dihedral angle Psi of residue #i over a trajectory
static java.util.ArrayList<Angle>	Angles.getTorsionAngleTimeSeries(Trajectory t, int atom1, int atom2, int atom3, int atom4) Calculates the time series of torsion angle over a trajectory defined by four atoms