11 papers · ranked by Valyu relevance
Zhi-Cheng Wang, Xiao-Bei Wu
Biogeography-based optimization (BBO) is a relatively new bioinspired heuristic for global optimization based on the mathematical models of biogeography. By investigating the applicability and performance of BBO for integer programming, we find that the original BBO algorithm does not perform well on a set of benchmark…
Marcin Briański, Martin Koutecký, Daniel Král’, Kristýna Pekárková + 1 more
An intensive line of research on fixed parameter tractability of integer programming is focused on exploiting the relation between the sparsity of a constraint matrix A and the norm of the elements of its Graver basis. In particular, integer programming is fixed parameter tractable when parameterized by the primal…
Ahmed F. Ali, Mohamed A. Tawhid
Cuckoo search algorithm is a promising metaheuristic population based method. It has been applied to solve many real life problems. In this paper, we propose a new cuckoo search algorithm by combining the cuckoo search algorithm with the Nelder-Mead method in order to solve the integer and minimax optimization…
Nabeel Ahmed, Pietro Sormanni, Prajwal Ciryam, Michele Vendruscolo + 2 more
Identifying the A- and P-site locations on ribosome-protected mRNA fragments from Ribo-Seq experiments is a fundamental step in the quantitative analysis of transcriptome-wide translation properties at the codon level. Many analyses of Ribo-Seq data have utilized heuristic approaches applied to a narrow range of…
Richard Schuster, Jeffrey O. Hanson, Matt Strimas-Mackey, Joseph R. Bennett
The resources available for conserving biodiversity are limited, and so protected areas need to be established in places that will achieve objectives for minimal cost. Two of the main algorithms for solving systematic conservation planning problems are Simulated Annealing (SA) and Integer linear programming (ILP).…
Frans Zdyb, Julius B. Kirkegaard
Biological image and video analysis is full of discrete decisions: whether an object is present, which multi-hypothesis detections are real, whether two detections are tracking the same object, or whether a cell divides or not. Standard pipelines resolve these locally and in sequence, e.g through non-max suppression…
Hendrik Schawe, Roman Bleim, Alexander K. Hartmann, Andrea Gambassi
Here we study linear programming applied to the random K-SAT problem, a fundamental problem in computational complexity. The K-SAT problem is to decide whether a Boolean formula with N variables and structured as a conjunction of M clauses, each being a disjunction of K variables or their negations is satisfiable or…
Albert No
The size of the largest binary single deletion code has been unknown for more than 50 years. It is known that Varshamov-Tenengolts (VT) code is an optimum single deletion code for block length $n\leq10$; however, only a few upper bounds of the size of single deletion code are proposed for larger n. We provide improved…
Daniel Molina-Pérez, Edgar Alfredo Portilla-Flores, Efrén Mezura-Montes, Eduardo Vega-Alvarado + 2 more
'Efrén Mezura-Montes' 'Eduardo Vega-Alvarado' 'María Bárbara Calva-Yañez' 'Thomas Stützle'] Mixed integer nonlinear programming (MINLP) addresses optimization problems that involve continuous and discrete/integer decision variables, as well as nonlinear functions. These problems often exhibit multiple discontinuous…
Henri Schmidt, Benjamin J. Raphael
Reconstructing unobserved ancestral states of a phylogenetic tree provides insight into the history of evolving systems and is one of the fundamental problems in phylogenetics. For a fixed phylogenetic tree, the most parsimonious ancestral reconstruction – a solution to the small parsimony problem – can be efficiently…
Pouya Ahadi, Balabhaskar Balasundaram, Juan S. Borrero, Charles Chen
In this study, we address the mate selection problem in the hybridization stage of a breeding pipeline, which constitutes the multi-objective breeding goal key to the performance of a variety development program. The solution framework we formulate seeks to ensure that individuals with the most desirable genomic…