Parameter Advising for Multiple Sequence Alignment, Deblasio Dan, Kececioglu John
Автор: Niedermeier, Rolf Название: Invitation to fixed-parameter algorithms ISBN: 0198566077 ISBN-13(EAN): 9780198566076 Издательство: Oxford Academ Рейтинг: Цена: 21780.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: An application-oriented introduction to the highly topical area of the development and analysis of efficient fixed-parameter algorithms for hard problems. Aimed at graduate and research mathematicians, algorithm designers, and computer scientists, it provides a fresh view on this highly innovative field of algorithmic research.
Автор: Dan DeBlasio; John Kececioglu Название: Parameter Advising for Multiple Sequence Alignment ISBN: 3319649175 ISBN-13(EAN): 9783319649177 Издательство: Springer Рейтинг: Цена: 12577.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание:
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, and has two main ingredients:
(a) the set of parameter choices considered by the advisor, and
(b) an estimator of alignment accuracy used to rank alignments produced by the aligner.
On coupling a parameter advisor with an aligner, once the advisor is trained in a learning phase, the user simply inputs sequences to align, and receives an output alignment from the aligner, where the advisor has automatically selected the parameter setting.
The chapters first lay out the foundations of parameter advising, and then cover applications and extensions of advising. The content
- examines formulations of parameter advising and their computational complexity,
- develops methods for learning good accuracy estimators,
- presents approximation algorithms for finding good sets of parameter choices, and
- assesses software implementations of advising that perform well on real biological data.
Also explored are applications of parameter advising to
- adaptive local realignment, where advising is performed on local regions of the sequences to automatically adapt to varying mutation rates, and
- ensemble alignment, where advising is applied to an ensemble of aligners to effectively yield a new aligner of higher quality than the individual aligners in the ensemble.
The book concludes by offering future directions in advising research.
Описание: This monograph provides a comprehensive overview of methods for searching, evaluating, and optimizing highway location and alignments using genetic algorithms (GAs), a powerful Artificial Intelligence (AI) technique. It presents a two-level programming structure to deal with the effects of varying highway location on traffic level changes in surrounding road networks within the highway location search and alignment optimization process. In addition, the proposed method evaluates environmental impacts as well as all relevant highway costs associated with its construction, operation, and maintenance. The monograph first covers various search methods, relevant cost functions, constraints, computational efficiency, and solution quality issues arising from optimizing the highway alignment optimization (HAO) problem. It then focuses on applications of a special-purpose GA in the HAO problem where numerous highway alignments are generated and evaluated, and finally the best ones are selected based on costs, traffic impacts, safety, energy, and environmental considerations. A review of other promising optimization methods for the HAO problem is also provided in this monograph.
Описание: Covers the fundamentals and techniques of multiple biological sequence alignment and analysis, and shows readers how to choose the appropriate sequence analysis tools for their tasks This book describes the traditional and modern approaches in biological sequence alignment and homology search.
Автор: David J Russell Название: Multiple Sequence Alignment Methods ISBN: 1493960474 ISBN-13(EAN): 9781493960477 Издательство: Springer Рейтинг: Цена: 15372.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: Authoritative and practical, Multiple Sequence Alignment Methods provides a readily available resource which will allow practitioners to experiment with different algorithms and find the particular algorithm that is of most use in their application.
Автор: David J Russell Название: Multiple Sequence Alignment Methods ISBN: 1627036458 ISBN-13(EAN): 9781627036450 Издательство: Springer Рейтинг: Цена: 15372.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: Authoritative and practical, Multiple Sequence Alignment Methods provides a readily available resource which will allow practitioners to experiment with different algorithms and find the particular algorithm that is of most use in their application.
Автор: Kazutaka Katoh Название: Multiple Sequence Alignment ISBN: 107161035X ISBN-13(EAN): 9781071610350 Издательство: Springer Рейтинг: Цена: 16769.00 р. Наличие на складе: Поставка под заказ.
Описание: Chapter "Alignment of Biological Sequences with Jalview" is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.
Автор: Tiberiu Colosi; Mihail-Ioan Abrudean; Mihaela-Ligi Название: Numerical Simulation of Distributed Parameter Processes ISBN: 3319000136 ISBN-13(EAN): 9783319000138 Издательство: Springer Рейтинг: Цена: 20962.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: Covering processes formed by systems of partial derivative equations (PDEs), including systems of ordinary differential equations (ODEs), this book interprets and uses the matrix of partial derivatives of the state vector with applications to engineering.
Автор: Kaltenbacher Barbara, Schuster Thomas, Wald Anne Название: Time-dependent Problems in Imaging and Parameter Identification ISBN: 3030577864 ISBN-13(EAN): 9783030577865 Издательство: Springer Рейтинг: Цена: 20962.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: 1 Joint phase reconstruction and magnitude segmentation from velocity-encoded MRI data 2 Dynamic Inverse Problems for the Acoustic Wave Equation 3 Motion compensation strategies in tomography 4 Microlocal properties of dynamic Fourier integral operators 5 The tangential cone condition for some coefficient identification model problems in parabolic PDEs 6 Sequential subspace optimization for recovering stored energy functions in hyperelastic materials from time-dependent data 7 Joint Motion Estimation and Source Identification using Convective Regularisation with an Application to the Analysis of Laser Nanoablations 8 Quantitative OCT reconstructions for dispersive media 9 Review of Image Similarity Measures for Joint Image Reconstruction from Multiple Measurements 10 Holmgren-John Unique Continuation Theorem for Viscoelastic Systems 11 Tomographic Reconstruction for Single Conjugate Adaptive Optics 12 Inverse Problems of Single Molecule Localization Microscopy 13 Parameter identification for the Landau-Lifshitz-Gilbert equation in Magnetic Particle Imaging 14 An inverse source problem related to acoustic nonlinearity parameter imaging
Описание: This work covers sequence-based protein homology detection, a fundamental and challenging bioinformatics problem with a variety of real-world applications. The text first surveys a few popular homology detection methods, such as Position-Specific Scoring Matrix (PSSM) and Hidden Markov Model (HMM) based methods, and then describes a novel Markov Random Fields (MRF) based method developed by the authors. MRF-based methods are much more sensitive than HMM- and PSSM-based methods for remote homolog detection and fold recognition, as MRFs can model long-range residue-residue interaction. The text also describes the installation, usage and result interpretation of programs implementing the MRF-based method.
Автор: Tiberiu Colosi; Mihail-Ioan Abrudean; Mihaela-Ligi Название: Numerical Simulation of Distributed Parameter Processes ISBN: 3319033263 ISBN-13(EAN): 9783319033266 Издательство: Springer Рейтинг: Цена: 20896.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: Covering processes formed by systems of partial derivative equations (PDEs), including systems of ordinary differential equations (ODEs), this book interprets and uses the matrix of partial derivatives of the state vector with applications to engineering.
Автор: Hans Georg Bock; Thomas Carraro; Willi J?ger; Stef Название: Model Based Parameter Estimation ISBN: 3642440762 ISBN-13(EAN): 9783642440762 Издательство: Springer Рейтинг: Цена: 18167.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: This book features papers from a workshop on parameter estimation held in 2009 in Heidelberg. It combines mathematical and numerical methods to apply parameter estimation and optimum experimental design in a range of contexts.
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