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Optimal alignments in linear space
Bioinformatics, 1988Space, not time, is often the limiting factor when computing optimal sequence alignments, and a number of recent papers in the biology literature have proposed space-saving strategies. However, a 1975 computer science paper by Hirschberg presented a method that is superior to the new proposals, both in theory and in practice.
E W, Myers, W, Miller
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Optimization of hindfoot alignment radiography
Acta Radiologica, 2016Background Cobey and Buck described methods to evaluate hindfoot alignment, but it is still unclear which method is better and easier to perform in clinical practice. Purpose To evaluate the optimal method for radiography of hindfoot alignment. Material and Methods We randomly selected 50 patients visiting the foot and ankle surgery outpatient ...
Chonglin, Yang +5 more
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Bioinformatics, 1991
Algorithms often align sequences by minimizing a cost. Such algorithms usually operate by aligning successively longer subsequences until they finish the alignment. Efficient algorithms, such as those of Fickett and Ukkonen, speed the computation by ignoring bad subalignments.
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Algorithms often align sequences by minimizing a cost. Such algorithms usually operate by aligning successively longer subsequences until they finish the alignment. Efficient algorithms, such as those of Fickett and Ukkonen, speed the computation by ignoring bad subalignments.
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Pharao: Pharmacophore alignment and optimization
Journal of Molecular Graphics and Modelling, 2008Within the context of early drug discovery, a new pharmacophore-based tool to score and align small molecules (Pharao) is described. The tool is built on the idea to model pharmacophoric features by Gaussian 3D volumes instead of the more common point or sphere representations.
Jonatan, Taminau +2 more
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Pareto Optimal Pairwise Sequence Alignment
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2013Sequence alignment using evolutionary profiles is a commonly employed tool when investigating a protein. Many profile-profile scoring functions have been developed for use in such alignments, but there has not yet been a comprehensive study of Pareto optimal pairwise alignments for combining multiple such functions.
Kevin W, DeRonne, George, Karypis
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Near-optimal sequence alignment
Current Opinion in Structural Biology, 1996Recent advances in algorithmic techniques and statistics of sequence alignment have helped to make near-optimal alignments an important tool in the delineation of biologically valid alignments. Near-optimal alignments serve to judge the reliability of portions of a sequence alignment.
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Optimal Patterns for Alignment
Applied Optics, 1974Patterns with optimal autocorrelation functions are sometimes optimal for optical alignment. When the finest gratings that can be resolved exceed those that actually can be used, errors of alignment can be reduced by nearly a factor of 2 by incorporating segments of a grating into the patterns. Under some conditions, resolution of the inspecting device
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2013
The process described here uses a quantitative approach to get alignment between multiple stakeholders who may not agree. In each of the Use Cases presented later, there was significant disagreement between the stakeholders.
Peter J. Morales, Dennis Anderson
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The process described here uses a quantitative approach to get alignment between multiple stakeholders who may not agree. In each of the Use Cases presented later, there was significant disagreement between the stakeholders.
Peter J. Morales, Dennis Anderson
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Optimal Sequence Alignment to ED-Strings
2022Partial Order Alignment (POA) was introduced by Lee et al. in 2002 to allow the alignment of a string to a graph-like structure representing a set of aligned strings (a Multiple Sequence Alignment, MSA). However, the POA edit transcript (the sequence of edit operations that describe the alignment) does not reflect the possible elasticity of the MSA ...
Mwaniki, NM, Pisanti, N
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