Center for Integrative Biomedical Computing Legacy Transition

综合生物医学计算传统过渡中心

• 批准号: 10402301
• 负责人: CHRISTOPHER R. JOHNSON
• 金额: $ 47.05万
• 依托单位: UNIVERSITY OF UTAH
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-05-01 至 2023-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10402301
• 关键词: 3-Dimensional; Algorithms; Area; Automobile Driving; Biomedical Computing; Biomedical Technology; Brain; Code; Communities; Community Developments; Complex; Computational algorithm; Computer Systems; Computer software; Confocal Microscopy; Data; Data Set; Development; Documentation; Educational workshop; Elements; Ensure; Event; Funding; Future; Galium; Goals; Growth; Head; Health; Image; Internet; Knowledge; Label; Libraries; Magnetic Resonance Imaging; Maintenance; Manuals; Modeling; Process; Publications; Recording of previous events; Research; Research Personnel; Research Project Grants; Resources; Software Engineering; Software Tools; Support System; System; Testing; Time; United States National Institutes of Health; Visualization; X-Ray Computed Tomography; base; bioelectricity; computer code; data resource; flexibility; high standard; improved; infrastructure development; interoperability; member; microscopic imaging; models and simulation; novel; open data; open source; operation; outreach; portability; programs; research and development; simulation; software development; software infrastructure; software systems; success; sustainable resource; tool; usability

Summary The Center for Integrative Biomedical Computing (CIBC) has an established, twenty year record as a Biomedical Technology Research Resource (BTRR) whose focus has been technical research and development in the area of image based modeling and simulation. The resulting legacy of scientific publications, novel algorithms and computational approaches and especially a suite of software tools and data sets can continue to support a vibrant research community even as the twilight requirements of the BTRR program dictate a time limit on NIH P41 funding. However, while already in heavy use, many of the existing, open source, software tools require additional hardening, documentation, and user-interface support to reach their full potential. More important, the software engineering and infrastructure, even though they represent the highest standards available from an academic center, are not yet robust and flexible enough to sustain easy maintenance and extension by a community outside the CIBC, a key element to ensuring the continued health and growth of the impact of these tools beyond the lifetime of the BTRR. Finally, there are existing collaborators and Driving Biomedical Project (DBP) partners whose research would suffer with the pending cessation of operations of the BTRR. We propose a transition plan to achieve long term sustainability of the software and data resources that the CIBC has produced. The goal of this plan is to complete the conversion of all the technical products achieved over the lifetime of the Center into well crafted, validated computer code with all the necessary support for both users and future maintainers of the code base. We seek to convert our open-source software into something far more valuable: community supported and sustained software. The conversion will require the assistance of a professional software house that is familiar with the necessary steps and with the technical domain of our center, Kitware Inc. Kitware is a company with a long history of assisting biomedical researchers to develop highly complex software packages and libraries, including VTK, ITK, 3D Slicer, and ParaView. Members of the CIBC have collaborated with Kitware in the past so there is a proven relationship on which to pursue the proposed transition plan. This combination of the domain specific knowledge of the specific tools within the twenty years of the CIBC, along with the ability of Kitware to support and deploy software and data, will ensure a successful transition and a lasting legacy from this BTRR.

概括 综合生物医学计算中心 (CIBC) 拥有二十年的既定记录 作为生物医学技术研究资源 (BTRR)，其重点是技术 基于图像的建模和仿真领域的研究和开发。由此产生的 科学出版物、新颖算法和计算方法的遗产，尤其是 一套软件工具和数据集可以继续支持充满活力的研究社区，甚至 因为 BTRR 计划的黄昏要求规定了 NIH P41 资助的时间限制。 然而，虽然已经被大量使用，但许多现有的开源软件工具需要 额外的强化、文档和用户界面支持，以充分发挥其潜力。更多的 软件工程和基础设施很重要，尽管它们代表了最高水平 学术中心提供的标准还不够强大和灵活，无法维持 CIBC 之外的社区易于维护和扩展，这是确保 这些工具在 BTRR 生命周期之外的持续健康发展和影响力的增长。 最后，还有现有的合作者和驱动生物医学项目 (DBP) 合作伙伴，他们的 由于 BTRR 即将停止运营，研究工作将会受到影响。 我们提出一个过渡计划，以实现软件和数据的长期可持续性 CIBC 生产的资源。该计划的目标是完成所有的转换 将中心在其生命周期内取得的技术产品精心设计、经过验证 计算机代码，为代码的用户和未来维护者提供所有必要的支持 根据。我们寻求将我们的开源软件转化为更有价值的东西：社区 支持和持续的软件。转换需要专业人士的帮助 熟悉必要步骤和我们技术领域的软件公司 Kitware Inc. 中心。Kitware 是一家在协助生物医学研究人员方面拥有悠久历史的公司 开发高度复杂的软件包和库，包括 VTK、ITK、3D Slicer 和 帕拉维尤。 CIBC 成员过去曾与 Kitware 合作过，因此经过验证 以此为基础来推行拟议的过渡计划。这种组合域 CIBC 二十年来对特定工具的具体知识，以及能力 Kitware 来支持和部署软件和数据，将确保成功的过渡和 BTRR 的持久遗产。