RNAView Class Reference

Inheritance diagram for RNAView:

Collaboration diagram for RNAView:

Classes
struct	Hbparam

Static Public Member Functions
static void	RNAView_init ()
static List< int[]>	findHbonds ()

Static Private Member Functions
static float	Ehbond (float dij, float alpa, float alpb, Hbparam hbp)
static float	angle (Vector3 a, Vector3 b, Vector3 c)
static float	PointToPlaneDistance (Vector3 p1, Vector3 p2, Vector3 p3, Vector3 x)
static float	NewPlane (Vector3 a, Vector3 b, Vector3 c, Vector3 d)
static float	ENewPlane (int atomId1, int atomId2)
static float	computeEnergyForBasePair (int residueId1, int residueId2)

Static Private Attributes
static Hbparam[][][]	hb_params
static Dictionary< string, int >	bases

Detailed Description

Definition at line 6 of file RNAView.cs.

Member Function Documentation

static float RNAView.angle ( Vector3  a, Vector3  b, Vector3  c  )

staticprivate

Definition at line 128 of file RNAView.cs.

Referenced by computeEnergyForBasePair().

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static float RNAView.computeEnergyForBasePair ( int  residueId1, int  residueId2  )

staticprivate

Definition at line 172 of file RNAView.cs.

References angle(), Molecule.Model.MoleculeModel.atomsIMDSimulationLocationlist, Molecule.Model.MoleculeModel.atomsNamelist, Molecule.Model.MoleculeModel.baseIdx, Ehbond(), and ENewPlane().

Referenced by findHbonds().

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static float RNAView.Ehbond ( float  dij, float  alpa, float  alpb, Hbparam  hbp  )

staticprivate

Definition at line 105 of file RNAView.cs.

References RNAView.Hbparam.alpa, RNAView.Hbparam.alpb, RNAView.Hbparam.dref, RNAView.Hbparam.s, and Molecule.Model.MoleculeModel.scale_RNA.

Referenced by computeEnergyForBasePair().

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static float RNAView.ENewPlane ( int  atomId1, int  atomId2  )

staticprivate

Definition at line 148 of file RNAView.cs.

References Molecule.Model.MoleculeModel.atomsIMDSimulationLocationlist, and NewPlane().

Referenced by computeEnergyForBasePair().

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static List<int[]> RNAView.findHbonds ( )

static

Definition at line 228 of file RNAView.cs.

References Molecule.Model.MoleculeModel.atomsNamelist, computeEnergyForBasePair(), and Molecule.Model.MoleculeModel.residues.

Referenced by VARNABillboard.generateFileInThread().

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static float RNAView.NewPlane ( Vector3  a, Vector3  b, Vector3  c, Vector3  d  )

staticprivate

Definition at line 143 of file RNAView.cs.

References PointToPlaneDistance(), and Molecule.Model.MoleculeModel.scale_RNA.

Referenced by ENewPlane().

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static float RNAView.PointToPlaneDistance ( Vector3  p1, Vector3  p2, Vector3  p3, Vector3  x  )

staticprivate

Definition at line 137 of file RNAView.cs.

Referenced by NewPlane().

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static void RNAView.RNAView_init ( )

static

Definition at line 33 of file RNAView.cs.

References RNAView.Hbparam.Hbparam().

Referenced by Molecule.Control.ControlMolecule.BuildHireRnaHydrogenBondsStructures().

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Member Data Documentation

Dictionary<string, int> RNAView.bases

staticprivate

Initial value:

= new Dictionary<string, int>()
    {
        {"G2", 0},
        {"A2", 1},
        {"C1", 2},
        {"U1", 3}
    }

Definition at line 25 of file RNAView.cs.

Hbparam [][][] RNAView.hb_params

staticprivate

Definition at line 23 of file RNAView.cs.

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The documentation for this class was generated from the following file:

• Assets/Scripts/RNAView.cs