Uses of Class
jgromacs.data.FrameIndexSet

Packages that use FrameIndexSet

jgromacs.analysis	jgromacs.analysis is a collection of classes providing static methods for various analysis tasks
jgromacs.data	jgromacs.data is a collection of classes representing multiple levels of structural data

Uses of FrameIndexSet in jgromacs.analysis

Methods in jgromacs.analysis that return FrameIndexSet

static FrameIndexSet	Similarity.findSimilarFramesDRMSD(Trajectory t, jama.Matrix reference, double cutoff) Returns the list of frames in a trajectory that are more similar to a reference distance matrix (based on the dRMSD similarity measure) than a cutoff value
static FrameIndexSet	Similarity.findSimilarFramesDRMSD(Trajectory t, PointList reference, double cutoff) Returns the list of frames in a trajectory that are more similar to a reference frame (based on the dRMSD similarity measure) than a cutoff value
static FrameIndexSet	Similarity.findSimilarFramesRMSD(Trajectory t, PointList reference, double cutoff) Returns the set of frames in a trajectory that are more similar to a reference frame (based on the RMSD similarity measure) than a cutoff value
static FrameIndexSet	Distances.getFramesWhereAtomIsCloseToPoint(Trajectory t, int atomindex, Point3D point, double cutoff) Returns the list of frames in the trajectory where an atoms is closer to a reference point than a given cutoff
static FrameIndexSet	Distances.getFramesWhereAtomIsDistantFromPoint(Trajectory t, int atomindex, Point3D point, double cutoff) Returns the list of frames in the trajectory where an atoms is more distant from a reference point than a given cutoff
static FrameIndexSet	Distances.getFramesWhereAtomsAreClose(Trajectory t, int atomindex1, int atomindex2, double cutoff) Returns the list of frames in a trajectory where two atoms are closer to each other than the given cutoff
static FrameIndexSet	Distances.getFramesWhereAtomsAreDistant(Trajectory t, int atomindex1, int atomindex2, double cutoff) Returns the list of frames in a trajectory where two atoms are more distant from each other than the given cutoff

Uses of FrameIndexSet in jgromacs.data

Methods in jgromacs.data that return FrameIndexSet

FrameIndexSet	FrameIndexSet.intersect(FrameIndexSet other) Returns the intersection of this frame index set and another
FrameIndexSet	FrameIndexSet.subtract(FrameIndexSet other) Returns the subtraction of another frame index set from this frame index set
FrameIndexSet	FrameIndexSet.union(FrameIndexSet other) Returns the union of this frame index set and another

Methods in jgromacs.data with parameters of type FrameIndexSet

Trajectory	Trajectory.getSubTrajectory(FrameIndexSet framelist) Returns the subtrajectory defined by the given frame list
FrameIndexSet	FrameIndexSet.intersect(FrameIndexSet other) Returns the intersection of this frame index set and another
FrameIndexSet	FrameIndexSet.subtract(FrameIndexSet other) Returns the subtraction of another frame index set from this frame index set
FrameIndexSet	FrameIndexSet.union(FrameIndexSet other) Returns the union of this frame index set and another

Constructors in jgromacs.data with parameters of type FrameIndexSet

FrameIndexSet(FrameIndexSet set)
Constructs a new FrameIndexSet object identical to a given FrameIndexSet