Overview
Package
Class
Use
Tree
Deprecated
Index
Help
PREV LETTER
NEXT LETTER
FRAMES
NO FRAMES
All Classes
A
C
D
E
F
G
H
I
J
L
M
P
R
S
T
U
W
T
TemplateApplication
- Class in
jgromacs.ui
Template JGromacs application
TemplateApplication()
- Constructor for class jgromacs.ui.
TemplateApplication
toString()
- Method in class jgromacs.data.
Alignment
Returns the String representation of alignment
toString()
- Method in class jgromacs.data.
Angle
Returns the String representation of angle
toString()
- Method in class jgromacs.data.
Atom
Returns the String representation of atom
toString()
- Method in class jgromacs.data.
FrameIndexSet
Returns the String representation of frame index set
toString()
- Method in class jgromacs.data.
IndexSet
Returns the String representation of index set
toString()
- Method in class jgromacs.data.
IndexSetList
Returns the String representation of index set list
toString()
- Method in class jgromacs.data.
Point3D
Returns the String representation of point
toString()
- Method in class jgromacs.data.
PointList
Returns the String representation of point list
toString()
- Method in class jgromacs.data.
Residue
Returns the String representation of residue
toString()
- Method in class jgromacs.data.
Sequence
Returns the String representation of sequence
toString()
- Method in class jgromacs.data.
SequencePosition
Returns the String representation of sequence position
toString()
- Method in class jgromacs.data.
Structure
Returns the String representation of structure
toString()
- Method in class jgromacs.data.
Trajectory
Returns the String representation of trajectory
toString()
- Method in class jgromacs.db.
AtomType
Returns the String representation of atom type
toString()
- Method in class jgromacs.db.
ResidueType
Returns the String representation of residue type
toString1Letter()
- Method in class jgromacs.data.
Sequence
Returns a String representation in which each residue is represented by its 1 letter code
toString1Letter(int)
- Method in class jgromacs.data.
Sequence
Returns a String representation in which each residue is represented by its 1 letter code and the string is split to lines of the given length
toString3Letter()
- Method in class jgromacs.data.
Sequence
Returns a String representation in which each residue is represented by its 3 letter code
toString3Letter(int)
- Method in class jgromacs.data.
Sequence
Returns a String representation in which each residue is represented by its 3 letter code and the string is split to lines of the given length
toStringAsGRO()
- Method in class jgromacs.data.
Structure
Returns the String representation of structure in GRO format
toStringAsPDB()
- Method in class jgromacs.data.
Structure
Returns the String representation of structure in PDB format
toStringInfo()
- Method in class jgromacs.data.
Alignment
Returns summary information about the alignment
toStringInfo()
- Method in class jgromacs.data.
FrameIndexSet
Returns summary information about the frame index set
toStringInfo()
- Method in class jgromacs.data.
IndexSet
Returns summary information about the index set
toStringInfo()
- Method in class jgromacs.data.
IndexSetList
Returns summary information about the index set list
toStringInfo()
- Method in class jgromacs.data.
PointList
Returns summary information about the point list
toStringInfo()
- Method in class jgromacs.data.
Residue
Returns summary information about the residue
toStringInfo()
- Method in class jgromacs.data.
Sequence
Returns summary information about the sequence
toStringInfo()
- Method in class jgromacs.data.
Structure
Returns summary information about the structure
Trajectory
- Class in
jgromacs.data
Objects of this class represent a single trajectory
Trajectory()
- Constructor for class jgromacs.data.
Trajectory
Constructs a new Trajectory object
Trajectory(String)
- Constructor for class jgromacs.data.
Trajectory
Constructs a new Trajectory object of given name
Trajectory(Structure)
- Constructor for class jgromacs.data.
Trajectory
Constructs a new Trajectory object of given structure
Trajectory(Structure[])
- Constructor for class jgromacs.data.
Trajectory
Constructs a new Trajectory object made from an ensemble of structures
transformByMatrix(Matrix)
- Method in class jgromacs.data.
Point3D
Returns the resulting vector of a matrix transformation
translate(Point3D)
- Method in class jgromacs.data.
PointList
Translates the points by a given vector
Overview
Package
Class
Use
Tree
Deprecated
Index
Help
PREV LETTER
NEXT LETTER
FRAMES
NO FRAMES
All Classes
A
C
D
E
F
G
H
I
J
L
M
P
R
S
T
U
W