Quick molecular viewing of bio3d PCA results

Usage

view.pca(
  pc,
  colorScheme = "residueindex",
  representation = "cartoon",
  backgroundColor = "white",
  ...
)

view.nma(
  pc,
  colorScheme = "residueindex",
  representation = "cartoon",
  backgroundColor = "white",
  ...
)

Arguments

pc: an object of class "pca" as obtained with function pca.xyz or pca.
colorScheme: keyword based coloring used only if cols input is NULL. Possible values include "residueindex", "modelindex", "sstruc", "bfactor", "chainid", "chainindex", "atomindex", and "occupancy".
representation: the representation style, useful values are "line", "tube", "cartoon", "trace", "backbone", and "ball+stick".
backgroundColor: a single element color vector that set the display area background color.
...: additional arguments passed to and from functions (e.g. to function write.pdb).

Value

an NGLVieweR display object that can be displayed or further added to using NGLVieweR::addRepresentation() and friends.

Functions

view.nma(): Quick viewing of NMA modes

Author

Barry Grant, bjgrant@ucsd.edu

Examples

#pdb <- bio3d::read.pdb("6s36")
#n <- bio3d::nma(pdb)
#view.nma(n)
#view.nma(n, colorScheme = "model")