Re: [AMBER] pre-processing of trajectories

From: case <>
Date: Sun, 27 Jun 2010 21:39:07 -0400

On Sun, Jun 27, 2010, wrote:

> >> can u help me out how to plot the projections on the top components
> >> of PCA? i'm new to this analysis
> >
> i want to find out the regions on the basis of their differential movements and
> locate the vectors so as to map the motions residue by residue. basically how
> pca eigen values can help me to to understand the residues behind these values
> so that i can knoew which vector belongs to which residue

PCA vectors describe global motions: it does not make sense to ask which
vector belongs to which residue. You can think of them as being analogous
to normal mode eigenvectors. You will need to visualize them to understand
what motions are being described.


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Received on Sun Jun 27 2010 - 19:00:03 PDT
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