[Computational-biology] Re: PAM matrices

Kevin Karplus karplus at cheep.cse.ucsc.edu
Mon May 30 13:13:03 EST 2005

On 2005-05-30, enrico <enrivarAT at fastwebnet.it> wrote:
> I need to compute arbitrary time PAM matrices (where time is continuous 
> and not discrete). I know that this is quite easy having the 
> instantaneous rate matrix (i.e. P(i,j,t) = exp(Q*t)). Unfortunatly I 
> wasn't able to find such rate matrix, is there someone who can help?


Different Versions of the Dayhoff Rate Matrix
Authors: Carolin Kosiol; Nick Goldman
Source: Molecular Biology and Evolution, February 2005, vol. 22,
	no. 2, pp. 193-199(7)
Publisher: Oxford University Press

would help?

Otherwise you could go back to Dayhoff's 1979 paper to get the
original rate matrix.

Kevin Karplus 	karplus at soe.ucsc.edu	http://www.soe.ucsc.edu/~karplus
Professor of Biomolecular Engineering, University of California, Santa Cruz
Undergraduate and Graduate Director, Bioinformatics
(Senior member, IEEE)	(Board of Directors, ISCB)
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