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Figure 5 | BMC Bioinformatics

Figure 5

From: Optimal neighborhood indexing for protein similarity search

Figure 5

Parameters involved in alphabet reduction. Once an alphabet and a sensitivity/selectivity ratio are chosen, several parameters are computed. Substitution score matrix and e-value parameters depend only on the alphabet and the model probabilities, whereas the optimal neighborhood size and the threshold depends also on the sensitivity/selectivity level.

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