Search · four archives
Search · four archives
8 papers · ranked by Valyu relevance
Daniel Dadush, Friedrich Eisenbrand, Thomas Rothvoss
Approximate integer programming is the following: For a given convex body $K \subseteq{\mathbb{R}}^n$, either determine whether $K \cap{\mathbb{Z}}^n$ is empty, or find an integer point in the convex body $2\cdot K - c +c$ which is K, scaled by 2 from its center of gravity c. Approximate integer programming can be…
Ahmad Abdi, Gérard Cornuéjols, Bertrand Guenin, Levent Tunçel
A rational number is dyadic if it has a finite binary representation $p/2^k$, where p is an integer and k is a nonnegative integer. Dyadic rationals are important for numerical computations because they have an exact representation in floating-point arithmetic on a computer. A vector is dyadic if all its entries are…
Conor F. Hayes, Steven A. Magana-Zook, Andre Gonçalves, Ahmet Can Solak + 2 more
We propose a novel approach for antibody library design that combines deep learning and multi-objective linear programming with diversity constraints. Our method leverages recent advances in sequence and structure-based deep learning for protein engineering to predict the effects of mutations on antibody properties.…
Fernando H. C. Dias, Alexandru I. Tomescu
Minimum flow decomposition (MFD) is a common problem across various fields of Computer Science, where a flow is decomposed into a minimum set of weighted paths. However, in Bioinformatics applications, such as RNA transcript or quasi-species assembly, the flow is erroneous, since is obtained from noisy read coverages.…
Kim-Manuel Klein
We consider so called 2-stage stochastic integer programs (IPs) and their generalized form, so called multi-stage stochastic IPs. A 2-stage stochastic IP is an integer program of the form $\max{c^T x \mid{\mathcal{A}}x = b, \,l \le x \le u,\, x \in{\mathbb{Z}}^{s + nt}}$ where the constraint matrix…
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…
Peiping Shen, Tongli Zhang, Chunfeng Wang
This article presents a new approximation algorithm for globally solving a class of generalized fractional programming problems (P) whose objective functions are defined as an appropriate composition of ratios of affine functions. To solve this problem, the algorithm solves an equivalent optimization problem (Q) via an…