Results 1  10
of
214,441
Efficient Parameterized Algorithm for Biopolymer StructureSequence Alignment
 In Proceedings of Workshop on Algorithms for Bioinformatics
, 2005
"... Abstract. Computational alignment of a biopolymer sequence (e.g., an RNA or a protein) to a structure is an effective approach to predict and search for the structure of new sequences. To identify the structure of remote homologs, the structuresequence alignment has to consider not only sequence si ..."
Abstract

Cited by 8 (4 self)
 Add to MetaCart
novel method and a parameterized algorithm for structuresequence alignment. Both the structure and the sequence are represented as graphs, where in general the graph for a biopolymer structure has a naturally small tree width. The algorithm constructs an optimal alignment by finding in the sequence
Planning Algorithms
, 2004
"... This book presents a unified treatment of many different kinds of planning algorithms. The subject lies at the crossroads between robotics, control theory, artificial intelligence, algorithms, and computer graphics. The particular subjects covered include motion planning, discrete planning, planning ..."
Abstract

Cited by 1108 (51 self)
 Add to MetaCart
This book presents a unified treatment of many different kinds of planning algorithms. The subject lies at the crossroads between robotics, control theory, artificial intelligence, algorithms, and computer graphics. The particular subjects covered include motion planning, discrete planning
A Systematic Comparison of Various Statistical Alignment Models
 COMPUTATIONAL LINGUISTICS
, 2003
"... ..."
Parameterized Complexity and Biopolymer Sequence Comparison
, 2007
"... The paper surveys parameterized algorithms and complexities for computational tasks on biopolymer sequences, including the problems of longest common subsequence, shortest common supersequence, pairwise sequence alignment, multiple sequencing alignment, structure–sequence alignment and structure–str ..."
Abstract

Cited by 4 (0 self)
 Add to MetaCart
The paper surveys parameterized algorithms and complexities for computational tasks on biopolymer sequences, including the problems of longest common subsequence, shortest common supersequence, pairwise sequence alignment, multiple sequencing alignment, structure–sequence alignment and structure–structure
2005 MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res
"... The accuracy of multiple sequence alignment program MAFFT has been improved. The new version (5.3) of MAFFT offers new iterative refinement options, HINSi, FINSi and GINSi, in which pairwise alignment information are incorporated into objective function. These new options of MAFFT showed hig ..."
Abstract

Cited by 788 (5 self)
 Add to MetaCart
The accuracy of multiple sequence alignment program MAFFT has been improved. The new version (5.3) of MAFFT offers new iterative refinement options, HINSi, FINSi and GINSi, in which pairwise alignment information are incorporated into objective function. These new options of MAFFT showed
Factor Graphs and the SumProduct Algorithm
 IEEE TRANSACTIONS ON INFORMATION THEORY
, 1998
"... A factor graph is a bipartite graph that expresses how a "global" function of many variables factors into a product of "local" functions. Factor graphs subsume many other graphical models including Bayesian networks, Markov random fields, and Tanner graphs. Following one simple c ..."
Abstract

Cited by 1787 (72 self)
 Add to MetaCart
computational rule, the sumproduct algorithm operates in factor graphs to computeeither exactly or approximatelyvarious marginal functions by distributed messagepassing in the graph. A wide variety of algorithms developed in artificial intelligence, signal processing, and digital communications can
Fast Folding and Comparison of RNA Secondary Structures (The Vienna RNA Package)
"... Computer codes for computation and comparison of RNA secondary structures, the Vienna RNA package, are presented, that are based on dynamic programming algorithms and aim at predictions of structures with minimum free energies as well as at computations of the equilibrium partition functions and bas ..."
Abstract

Cited by 812 (119 self)
 Add to MetaCart
and base pairing probabilities. An efficient heuristic for the inverse folding problem of RNA is introduced. In addition we present compact and efficient programs for the comparison of RNA secondary structures based on tree editing and alignment. All computer codes are written in ANSI C. They include
Boosting a Weak Learning Algorithm By Majority
, 1995
"... We present an algorithm for improving the accuracy of algorithms for learning binary concepts. The improvement is achieved by combining a large number of hypotheses, each of which is generated by training the given learning algorithm on a different set of examples. Our algorithm is based on ideas pr ..."
Abstract

Cited by 516 (15 self)
 Add to MetaCart
We present an algorithm for improving the accuracy of algorithms for learning binary concepts. The improvement is achieved by combining a large number of hypotheses, each of which is generated by training the given learning algorithm on a different set of examples. Our algorithm is based on ideas
Optimization Flow Control, I: Basic Algorithm and Convergence
 IEEE/ACM TRANSACTIONS ON NETWORKING
, 1999
"... We propose an optimization approach to flow control where the objective is to maximize the aggregate source utility over their transmission rates. We view network links and sources as processors of a distributed computation system to solve the dual problem using gradient projection algorithm. In thi ..."
Abstract

Cited by 690 (64 self)
 Add to MetaCart
We propose an optimization approach to flow control where the objective is to maximize the aggregate source utility over their transmission rates. We view network links and sources as processors of a distributed computation system to solve the dual problem using gradient projection algorithm
Results 1  10
of
214,441