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?
Perhaps
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.eduhttp://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)
life member (LAB, Adventure Cycling, American Youth Hostels)
Effective Cycling Instructor #218-ck (lapsed)
Affiliations for identification only.