Related papers: A New Paradigm for Identifying Reconciliation-Scen…
Finding the best configuration of algorithms' hyperparameters for a given optimization problem is an important task in evolutionary computation. We compare in this work the results of four different hyperparameter tuning approaches for a…
Targeting solutions over `flat' regions of the loss landscape, sharpness-aware minimization (SAM) has emerged as a powerful tool to improve generalizability of deep neural network based learning. While several SAM variants have been…
Causal discovery is a crucial initial step in establishing causality from empirical data and background knowledge. Numerous algorithms have been developed for this purpose. Among them, the score-matching method has demonstrated superior…
We introduce a novel approach for discriminative classification using evolutionary algorithms. We first propose an algorithm to optimize the total loss value using a modified 0-1 loss function in a one-dimensional space for classification.…
Random Forest (RF) is a successful paradigm for learning classifiers due to its ability to learn from large feature spaces and seamlessly integrate multi-class classification, as well as the achieved accuracy and processing efficiency.…
We introduce a hybrid metaphor for the visualization of the reconciliations of co-phylogenetic trees, that are mappings among the nodes of two trees. The typical application is the visualization of the co-evolution of hosts and parasites in…
Niching enables a genetic algorithm (GA) to maintain diversity in a population. It is particularly useful when the problem has multiple optima where the aim is to find all or as many as possible of these optima. When the fitness landscape…
Interactive segmentation models such as the Segment Anything Model (SAM) have demonstrated remarkable generalization on natural images, but they perform suboptimally on remote sensing imagery (RSI) due to severe domain shifts and the…
There are multiple factors which can cause the phylogenetic inference process to produce two or more conflicting hypotheses of the evolutionary history of a set X of biological entities. That is: phylogenetic trees with the same set of leaf…
Modern biomedical data mining requires feature selection methods that can (1) be applied to large scale feature spaces (e.g. `omics' data), (2) function in noisy problems, (3) detect complex patterns of association (e.g. gene-gene…
Sharpness-aware minimization (SAM), which searches for flat minima by min-max optimization, has been shown to be useful in improving model generalization. However, since each SAM update requires computing two gradients, its computational…
In genomics, pattern matching against a sequence of nucleotides plays a pivotal role for DNA sequence alignment and comparing genomes. This helps tackling some diseases, such as cancer in humans. The complexity of searching biological…
Reward-based fine-tuning steers a pretrained diffusion or flow-based generative model toward higher-reward samples while remaining close to the pretrained model. Although existing methods are derived from different perspectives, we show…
While Hybrid Supervised Fine-Tuning (SFT) followed by Reinforcement Learning (RL) has become the standard paradigm for training LLM agents, effective mechanisms for data allocation between these stages remain largely underexplored. Current…
We prove that some exact geometric pattern matching problems reduce in linear time to $k$-SUM when the pattern has a fixed size $k$. This holds in the real RAM model for searching for a similar copy of a set of $k\geq 3$ points within a set…
In high-contrast imaging, a novel detection algorithm for angular differential imaging (ADI) sequences has recently been introduced: the Regime Switching Model (RSM). In this study, we apply the RSM algorithm to analyze the F150 sample from…
In this work we consider the diversity maximization problem, where given a data set $X$ of $n$ elements, and a parameter $k$, the goal is to pick a subset of $X$ of size $k$ maximizing a certain diversity measure. [CH01] defined a variety…
The phase retrieval problem asks to recover a natural signal $y_0 \in \mathbb{R}^n$ from $m$ quadratic observations, where $m$ is to be minimized. As is common in many imaging problems, natural signals are considered sparse with respect to…
We consider a covariate shift problem where one has access to several different training datasets for the same learning problem and a small validation set which possibly differs from all the individual training distributions. This covariate…
An elastic-degenerate string is a sequence of $n$ finite sets of strings of total length $N$, introduced to represent a set of related DNA sequences, also known as a pangenome. The ED string matching (EDSM) problem consists in reporting all…