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by
Stefan Wolfsheimer, Bernd Burghardt, Alexander K Hartmann
, 2007

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...unctions α ij assigned to each edge of the graph and define the following expectation values with respect to q j c b q q q c c b 1 i ji = E j[ i( X) ⋅ αij( X)] = ∑ j( X) ⋅ i( X) ⋅ αij( X) = ij. j X j =-=(12)-=- This means, for any given vector c, all values {b ji } can be calculated using this expression. We require the α ij to be symmetric, i.e. α ij = α ji , and a finite overlap with each of the distribut...

by
Stefan Wolfsheimer, Bernd Burghardt, Er K Hartmann

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... simulations, we assured that for all temperatures Ni is almost the same, hence this drops out in Eq. (11). 11s0 100 200 300 400 500 600S10 -80 10-60 10-40 10-20 100 P(S) L = 40L = 400 Gumbel BLOSUM62=-=(12,1)-=- Figure 6: Density distribution of the score for gapped sequence alignment using BLOSUM62 matrices andaffine gap costs with ff = 12, fi = 1 for two sequences lengths L = M = 40. The results for other ...

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