相关论文: Viash: from scripts to pipelines

This paper introduces CAAI, a novel cognitive architecture for artificial intelligence in cyber-physical production systems. The goal of the architecture is to reduce the implementation effort for the usage of artificial intelligence…

Data is a valuable asset, and sharing it as a product across organizations is key to building comprehensive and useful insights in fields such as science and industry. Before sharing, data often requires transformation to comply with…

Data pre-processing pipelines are the bread and butter of any successful AI project. We introduce a novel programming model for pipelines in a data lakehouse, allowing users to interact declaratively with assets in object storage. Motivated…

Language workbenches are software engineering tools that help domain experts develop solutions to various classes of problems. Some of these tools focus on non-technical users and provide languages to help organize knowledge while other…

Modern data science relies on data analytic pipelines to organize interdependent computational steps. Such analytic pipelines often involve different algorithms across multiple steps, each with its own hyperparameters. To achieve the best…

The MIMIC-IV dataset is a large, publicly available electronic health record (EHR) resource widely used for clinical machine learning research. It comprises multiple modalities, including structured data, clinical notes, waveforms, and…

We present the first public release of ShapePipe, an open-source and modular weak-lensing measurement, analysis, and validation pipeline written in Python. We describe the design of the software and justify the choices made. We provide a…

CubeSats offer a low-cost platform for space research, particularly for Earth observation. However, their resource-constrained nature and being in space, challenge the flexibility and complexity of the deployed image processing pipelines…

Massive, multi-language, monolithic repositories form the backbone of many modern, complex software systems. To ensure consistent code quality while still allowing fast development cycles, Continuous Integration (CI) is commonly applied.…

In the last few years,Brain-Computer Interfaces (BCIs) have progressed as an emerging research area in the fields of human-computer interaction and interactive systems.This is primarily due to the introduction of low-cost…

Researchers in biomedical research, public health, and the life sciences often spend weeks or months discovering, accessing, curating, and integrating data from disparate sources, significantly delaying the onset of actual analysis and…

This paper introduces BioAgent Bench, a benchmark dataset and an evaluation suite designed for measuring the performance and robustness of AI agents in common bioinformatics tasks. The benchmark contains curated end-to-end tasks (e.g.,…

Biosciences have been revolutionized by next generation sequencing (NGS) technologies in last years, leading to new perspectives in medical, industrial and environmental applications. And although our motivation comes from biosciences, the…

Context. Software development pipelines are used for automating essential parts of software engineering processes, such as build automation and continuous integration testing. In particular, interactive pipelines, which process events in a…

Chaining functions for longer workloads is a key use case for FaaS platforms in data applications. However, modern data pipelines differ significantly from typical serverless use cases (e.g., webhooks and microservices); this makes it…

In the biomedical domain, visualizing the document embeddings of an extensive corpus has been widely used in information-seeking tasks. However, three key challenges with existing visualizations make it difficult for clinicians to find…

An increasing amount of research is being devoted to applying machine learning methods to electronic health record (EHR) data for various clinical purposes. This growing area of research has exposed the challenges of the accessibility of…

Modern information retrieval systems often rely on multiple components executed in a pipeline. In a research setting, this can lead to substantial redundant computations (e.g., retrieving the same query multiple times for evaluating…

With the escalating complexity and volume of genomic data, the capacity of biology institutions' HPC faces limitations. While the Cloud presents a viable solution for short-term elasticity, its intricacies pose challenges for bioinformatics…

We present the VASPKIT, a command-line program that aims at providing a powerful and user-friendly interface to perform high-throughput analysis of a variety of material properties from the raw data produced by the VASP code. It consists of…