Rpdb: viewAxis – R documentation

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viewAxis

Set the View of the ‘rgl’ Scene

Description

Set the view of the current ‘rgl’ scene aligning one vector perpendicularly to the screen and placing another in the horizontal plan.

Usage

viewAxis(V1, V2)

viewXY()

viewYZ()

viewZX()

viewAB(cryst1)

viewBC(cryst1)

viewCA(cryst1)

viewInertia(x, m = NULL)

Arguments

`V1`	a length 3 numeric vector.
`V2`	a length 3 numeric vector.
`cryst1`	an object of class ‘cryst1’.
`x`	an R object containing atomic coordinates.
`m`	a numeric vector containing atomic masses.

Details

viewAxis set the view of the current rgl scene (by setting UserMatrix. See par3d for more details) so that V1 is perpendicular to the screen and V2 is in the horizontal plan. The other functions documented here are helper functions calling viewAxis to set the view using particular Cartesian or lattice vectors. For functions viewAB, viewBC and viewCA a ‘cryst1’ object has to be specifyed to defined the lattice vectors used to set the view. The function viewInertia computes the inertia tensor from atomic coordinates and masses (see inertia) and set the view to its eigen vectors basis set.

Examples

x <- read.pdb(system.file("examples/PCBM_ODCB.pdb",package="Rpdb"))
visualize(x, mode = NULL)
viewAB(x$cryst1)

C70 <- read.pdb(system.file("examples/C70.pdb",package="Rpdb"))
visualize(C70, mode = NULL)
viewXY()
viewInertia(C70)

Rpdb

Read, Write, Visualize and Manipulate PDB Files

v2.3

GPL

Authors

Julien Idé

Initial release

2014-02-25