Related papers: PyPanda: a Python Package for Gene Regulatory Netw…

Gene regulatory network reconstruction is a fundamental problem in computational biology. We recently developed an algorithm, called PANDA (Passing Attributes Between Networks for Data Assimilation), that integrates multiple sources of…

Hybrid-Lambda is a software package that simulates gene trees under Kingman or two Lambda-coalescent processes within species networks or species trees. It is written in C++, and re- leased under GNU General Public License (GPL) version 3.…

We propose an AdaPtive Noise Augmentation (PANDA) technique to regularize the estimation and construction of undirected graphical models. PANDA iteratively optimizes the objective function given the noise augmented data until convergence to…

Pretrained VLMs exhibit strong zero-shot classification capabilities, but their predictions degrade significantly under common image corruptions. To improve robustness, many test-time adaptation (TTA) methods adopt positive data…

We extend the data augmentation technique PANDA by Li et al. (2018) that regularizes single graph estimation to jointly learning multiple graphical models with various node types in a unified framework. We design two types of noise to…

Recent research in the field of graph neural network (GNN) has identified a critical issue known as "over-squashing," resulting from the bottleneck phenomenon in graph structures, which impedes the propagation of long-range information.…

Accurately determining a change in protein binding affinity upon mutations is important for the discovery and design of novel therapeutics and to assist mutagenesis studies. Determination of change in binding affinity upon mutations…

We propose TANDA, an effective technique for fine-tuning pre-trained Transformer models for natural language tasks. Specifically, we first transfer a pre-trained model into a model for a general task by fine-tuning it with a large and…

We propose the AdaPtive Noise Augmentation (PANDA) procedure to regularize the estimation and inference of generalized linear models (GLMs). PANDA iteratively optimizes the objective function given noise augmented data until convergence to…

This paper introduces PyGAD, an open-source easy-to-use Python library for building the genetic algorithm. PyGAD supports a wide range of parameters to give the user control over everything in its life cycle. This includes, but is not…

Video anomaly detection (VAD) is a critical yet challenging task due to the complex and diverse nature of real-world scenarios. Previous methods typically rely on domain-specific training data and manual adjustments when applying to new…

Streaming anomaly detection requires algorithms that operate under strict constraints: bounded memory, single-pass processing, and constant-time complexity. We present PySAD, a comprehensive Python framework addressing these challenges…

PANDA is a powerful generic algorithm for answering conjunctive queries (CQs) and disjunctive datalog rules (DDRs) given input degree constraints. In the special case where degree constraints are cardinality constraints and the query is…

We introduce OpenRAND, a C++17 library aimed at facilitating reproducible scientific research through the generation of statistically robust and yet replicable random numbers. OpenRAND accommodates single and multi-threaded applications on…

Training modern deep learning models is increasingly constrained by GPU memory and compute limits. While Randomized Numerical Linear Algebra (RandNLA) offers proven techniques to compress these models, the lack of a unified,…

Conformance testing is essential for ensuring that protocol implementations comply with their specifications. However, traditional testing approaches involve manually creating numerous test cases and scripts, making the process…

Graph domain adaptation has emerged as a promising approach to facilitate knowledge transfer across different domains. Recently, numerous models have been proposed to enhance their generalization capabilities in this field. However, there…

In recent years, training data attribution (TDA) methods have emerged as a promising direction for the interpretability of neural networks. While research around TDA is thriving, limited effort has been dedicated to the evaluation of…

This paper introduces PyDCI, a new implementation of Distributional Correspondence Indexing (DCI) written in Python. DCI is a transfer learning method for cross-domain and cross-lingual text classification for which we had provided an…

Python data science libraries such as Pandas and NumPy have recently gained immense popularity. Although these libraries are feature-rich and easy to use, their scalability limitations require more robust computational resources. In this…