Parameter Advising for Multiple Sequence Alignment

• Main Authors: DeBlasio, Dan (Author), Kececioglu, John (Author)
• Corporate Author: SpringerLink (Online service)
• Format: Electronic eBook
• Language: English
• Published: Cham : Springer International Publishing : Imprint: Springer, 2017.
• Series: Computational Biology, 26
• Subjects: Computer science.; Algorithms.; Bioinformatics.; Mathematical optimization.; Computer Science.; Computational Biology/Bioinformatics.; Algorithm Analysis and Problem Complexity.; Discrete Optimization.

This book develops a new approach called parameter advising for finding a parameter setting for a sequence aligner that yields a quality alignment of a given set of input sequences. In this framework, a parameter advisor is a procedure that automatically chooses a parameter setting for the input, an...

Table of Contents:

• 1 Introduction and Background
• 2 Alignment Accuracy Estimation
• 3 The Facet Estimator
• 4 Computational Complexity of Advising
• 5 Constructing Advisors
• 6 Parameter Advising for the Opal Aligner
• 7 Ensemble Mind Alignment
• 8 Adaptive Local Realignment
• 9 Core Column Prediction for Alignments
• 10 Future Directions.