Determine the cross-correlations of atomic displacements.
dccm(x, ...)a numeric matrix of Cartesian coordinates with a row per
structure/frame which will br passed to dccm.xyz().
Alternatively, an object of class nma as obtained from
function nma that will be passed to the dccm.nma()
function, see below for examples.
additional arguments passed to the methods
dccm.xyz, dccm.pca, dccm.nma, and dccm.enma.
dccm is a generic function calling the corresponding function
determined by the class of the input argument x. Use
methods("dccm") to get all the methods for dccm
generic:
dccm.xyz will be used when x is a numeric matrix
containing Cartesian coordinates (e.g. trajectory data).
dccm.pca will calculate the cross-correlations based on
an pca object.
dccm.nma will calculate the cross-correlations based on
an nma object. Similarly, dccm.enma will
calculate the correlation matrices based on an ensemble of nma
objects (as obtained from function nma.pdbs).
plot.dccm and pymol.dccm provides
convenient functionality to plot a correlation map, and visualize the
correlations in the structure, respectively.
See examples for each corresponding function for more details.
Grant, B.J. et al. (2006) Bioinformatics 22, 2695--2696.
dccm.xyz, dccm.nma,
dccm.enma, dccm.pca, plot.dccm,
pymol.dccm.