Related papers: SmoQyDEAC.jl: A differential evolution package for…
Although RNA-Seq data provide unprecedented isoform-level expression information, detection of alternative isoform regulation (AIR) remains difficult, particularly when working with an incomplete transcript annotation. We introduce…
Although atomistic simulations of proteins and other biological systems are approaching microsecond timescales, the quality of trajectories has remained difficult to assess. Such assessment is critical not only for establishing the…
For scientific machine learning tasks with a lot of custom code, picking the right Automatic Differentiation (AD) system matters. Our Julia package DifferentiationInterface$.$jl provides a common frontend to a dozen AD backends, unlocking…
Accurate air quality prediction is essential for public health, environmental monitoring, and industrial safety. However, most existing approaches rely on centralized learning paradigms, which introduce challenges related to scalability,…
We present first results on the calculation of fermionic spectral functions from analytically continued flow equations within the Functional Renormalization Group approach. Our method is based on the same analytic continuation from…
Canonical Correlation Analysis, CCA, is a widely used multivariate method in omics research for integrating high dimensional datasets. CCA identifies hidden links by deriving linear projections of features maximally correlating datasets.…
OutlierDetection.jl is an open-source ecosystem for outlier detection in Julia. It provides a range of high-performance outlier detection algorithms implemented directly in Julia. In contrast to previous packages, our ecosystem enables the…
Schemes of classical shadows have been developed to facilitate the read-out of digital quantum devices, but similar tools for analog quantum simulators are scarce and experimentally impractical. In this work, we provide a measurement scheme…
Autoregressive decoding makes the inference of Large Language Models (LLMs) time-consuming. In this paper, we reconsider speculative sampling and derive two key observations. Firstly, autoregression at the feature (second-to-top-layer)…
FAYE, The Frame AnalYsis Executable, is a Java based implementation of the Frame/Stream/Stop model for analyzing data. Unlike traditional Event based analysis models, the Frame/Stream/Stop model has no preference as to which part of any…
The Parareal algorithm allows to solve evolution problems exploiting parallelization in time. Its convergence and stability have been proved under the assumption of regular (smooth) inputs. We present and analyze here a new Parareal…
We consider a sparse grid collocation method in conjunction with a time discretization of the differential equations for computing expectations of functionals of solutions to differential equations perturbed by time-dependent white noise.…
SymBoltz is a new Julia package for solving the linear Einstein-Boltzmann equations in cosmology. It features a symbolic-numeric interface for specifying equations, is free of approximation switching schemes, and is compatible with…
This paper proposes a modeling framework for dynamic topic evolution based on temporal large language models. The method first uses a large language model to obtain contextual embeddings of text and then introduces a temporal decay function…
SymJAX is a symbolic programming version of JAX simplifying graph input/output/updates and providing additional functionalities for general machine learning and deep learning applications. From an user perspective SymJAX provides a la…
Working towards the development of an evolvable cancer treatment simulator, the investigation of Differential Evolution was considered, motivated by the high efficiency of variations of this technique in real-valued problems. A basic DE…
We introduce the multi-dimensional Skellam mechanism, a discrete differential privacy mechanism based on the difference of two independent Poisson random variables. To quantify its privacy guarantees, we analyze the privacy loss…
Score-based modeling through stochastic differential equations (SDEs) has provided a new perspective on diffusion models, and demonstrated superior performance on continuous data. However, the gradient of the log-likelihood function, i.e.,…
MicroMagnetic.jl is an open-source Julia package for micromagnetic and atomistic simulations. Using the features of the Julia programming language, MicroMagnetic.jl supports CPU and various GPU platforms, including NVIDIA, AMD, Intel, and…
Maintaining a dynamic $k$-core decomposition is an important problem that identifies dense subgraphs in dynamically changing graphs. Recent work by Liu et al. [SPAA 2022] presents a parallel batch-dynamic algorithm for maintaining an…