Derivative-free neural network for optimizing the scoring functions associated with dynamic programming of pairwise-profile alignment

Derivative-free neural network for optimizing the scoring functions associated with dynamic programming of pairwise-profile alignment

Abstract Background A profile-comparison method with position-specific scoring matrix (PSSM) is among the most accurate alignment methods. Currently, cosine similarity and correlation coefficients are used as scoring functions of dynamic programming to calculate similarity between PSSMs. However, it...

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Bibliographic Details
Main Author: Kazunori D. Yamada
Format: Article
Language:English
Published: BMC 2018-02-01
Series:Algorithms for Molecular Biology
Subjects:
Dynamic programming
Profile alignment
Neural network
Evolutionary strategy
Derivative-free optimization
Online Access:http://link.springer.com/article/10.1186/s13015-018-0123-6

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http://link.springer.com/article/10.1186/s13015-018-0123-6

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