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Technological advances in high performance computing and maturing physical models allow scientists to simulate weather and climate evolutions with an increasing accuracy. While this improved accuracy allows us to explore complex dynamical…
Recently, much attention has been given to understanding recombination events along a chromosome in a variety of field. For instance, many population genetics problems are limited by the inaccuracy of inferred evolutionary histories of…
We present a novel and flexible architecture for point cloud segmentation with dual-representation iterative learning. In point cloud processing, different representations have their own pros and cons. Thus, finding suitable ways to…
Phylogenetic trees (i.e. evolutionary trees, additive trees or X-trees) play a key role in the processes of modeling and representing species evolution. Genome evolution of a given group of species is usually modeled by a species…
A probabilistic reconstruction of genealogies in a polyploid population (from 2x to 4x) is investigated, by considering genetic data analyzed as the probability of allele presence in a given genotype. Based on the likelihood of all possible…
Many biological studies involve inferring the evolutionary history of a sample of individuals from a large population and interpreting the reconstructed tree. Such an ascertained tree typically represents only a small part of a…
Phylogenetic networks are used to represent the evolutionary history of species. They are versatile when compared to traditional phylogenetic trees, as they capture more complex evolutionary events such as hybridization and horizontal gene…
Scientific and environmental imagery often suffer from complex mixtures of noise related to the sensor and the environment. Existing restoration methods typically remove one degradation at a time, leading to cascading artifacts,…
Many web databases can be seen as providing partial and overlapping information about entities in the world. To answer queries effectively, we need to integrate the information about the individual entities that are fragmented over multiple…
The reconstruction of interaction networks between random events is a critical problem arising from statistical physics and politics, sociology, biology, psychology, and beyond. The Ising model lays the foundation for this reconstruction…
Pruning is a compression method which aims to improve the efficiency of neural networks by reducing their number of parameters while maintaining a good performance, thus enhancing the performance-to-cost ratio in nontrivial ways. Of…
Foundation models for computational pathology have shown great promise for specimen-level tasks and are increasingly accessible to researchers. However, specimen-level models built on these foundation models remain largely unavailable,…
Vision Foundation Models (VFM) pre-trained on large-scale unlabeled data have achieved remarkable success on general computer vision tasks, yet typically suffer from significant domain gaps when applied to agriculture. In this context, we…
We introduce SpreadPy as a Python library for simulating spreading activation in cognitive single-layer and multiplex networks. Our tool is designed to perform numerical simulations testing structure-function relationships in cognitive…
A promising paradigm for achieving highly efficient deep neural networks is the idea of evolutionary deep intelligence, which mimics biological evolution processes to progressively synthesize more efficient networks. A crucial design factor…
Complex heterogeneous dynamic networks like knowledge graphs are powerful constructs that can be used in modeling data provenance from computer systems. From a security perspective, these attributed graphs enable causality analysis and…
Generative object compositing emerges as a promising new avenue for compositional image editing. However, the requirement of object identity preservation poses a significant challenge, limiting practical usage of most existing methods. In…
In evolutionary studies it is common to use phylogenetic trees to represent the evolutionary history of a set of species. However, in case the transfer of genes or other genetic information between the species or their ancestors has…
Motivation: Clustering techniques are routinely applied to identify patterns of co-expression in gene expression data. Co-regulation, and involvement of genes in similar cellular function, is subsequently inferred from the clusters which…
This paper introduces the concept of Open Source Intelligence (OSINT) as an important application in intelligent profiling of individuals. With a variety of tools available, significant data shall be obtained on an individual as a…