Table 2 Effect of tightening the EM convergence criteria for the PROT3 benchmark. The "mininc" parameter is the minimum fractional log-likelihood increase per iteration of EM. Accuracies for the gtjxyl benchmark alignment are reported, along with log-likelihoods. See Table 1 for additional notation.
From: XRate: a fast prototyping, training and annotation tool for phylo-grammars
mininc | Runtime/min | Acc(gtjxyl) | log2 P(A, D|θ D ) | log2 P(D|θ D ) | log2 P(A|D, θ D ) |
|---|---|---|---|---|---|
le-3 | 14 | 64.1 | -2696469 | -2549947 | -146522 |
le-4 | 35 | 64.7 | -2686598 | -2539908 | -146690 |
le-5 | 84 | 68.0 | -2682667 | -2536849 | -145818 |