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Figure 7 | BMC Bioinformatics

Figure 7

From: A replica exchange Monte Carlo algorithm for protein folding in the HP model

Figure 7

Comparing REMC and GTabu. The run-time distributions of REMC m and REMC pm for the four largest benchmark instances in 2D are shown; P(solve) denotes the probability of finding a ground-state conformation within a given run-time. The completion rates for GTabu after 30 minutes and 60 minutes as reported in [7] are plotted. Optimistically assuming GTabu could be improved by a factor of 15 under different experimental conditions and implementation improvements, we have also plotted the same completion rates after 2 and 4 minutes. In the case of S1-8, GTabu reports a 100% successful completion rate. In all other instances, both variants of REMC using pull moves in their local search neighbourhood outperform GTabu even under a handicapped analysis.

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