Notebook-as-a-VRE (NaaVRE): from private notebooks to a collaborative cloud virtual research environment
Zhiming Zhao, Spiros Koulouzis, Riccardo Bianchi, Siamak Farshidi,, Zeshun Shi, Ruyue Xin, Yuandou Wang, Na Li, Yifang Shi, Joris Timmermans, W., Daniel Kissling

TL;DR
This paper introduces NaaVRE, an embedded virtual research environment within Jupyter notebooks, enabling researchers to seamlessly access research assets, manage workflows, and collaborate on large-scale scientific data processing.
Contribution
It presents a novel integrated VRE solution for Jupyter notebooks, bridging the gap between lightweight notebooks and comprehensive research environments.
Findings
Enables scalable processing of multi-terabyte LiDAR data.
Supports search and management of research assets within notebooks.
Facilitates collaborative scientific workflows.
Abstract
Virtual Research Environments (VREs) provide user-centric support in the lifecycle of research activities, e.g., discovering and accessing research assets, or composing and executing application workflows. A typical VRE is often implemented as an integrated environment, which includes a catalog of research assets, a workflow management system, a data management framework, and tools for enabling collaboration among users. Notebook environments, such as Jupyter, allow researchers to rapidly prototype scientific code and share their experiments as online accessible notebooks. Jupyter can support several popular languages that are used by data scientists, such as Python, R, and Julia. However, such notebook environments do not have seamless support for running heavy computations on remote infrastructure or finding and accessing software code inside notebooks. This paper investigates the gap…
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