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.

总结 集成生物医学计算中心（CIBC）已经建立了20年的记录 作为生物医学技术研究资源（BTRR），其重点是技术 在基于图像的建模和仿真领域的研究和发展。所得 科学出版物的遗产，新的算法和计算方法，特别是 一套软件工具和数据集可以继续支持一个充满活力的研究社区， 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 重要的是，软件工程和基础设施，即使它们代表了最高的 学术中心提供的标准，还不够强大和灵活， CIBC以外的社区易于维护和扩展，这是确保 这些工具的持续健康和影响力的增长超出了BTRR的寿命。 最后，现有的合作者和驱动生物医学项目（DBP）的合作伙伴， 研究将因BTRR即将停止运行而受到影响。 我们提出了一个过渡计划，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 在中心的生命周期内实现的技术产品， 计算机代码，为用户和未来的代码维护者提供所有必要的支持 基地我们寻求将我们的开源软件转换成更有价值的东西：社区 支持和维护软件。转换将需要专业人士的协助 熟悉必要步骤和我们的技术领域的软件公司 公司简介Kitware是一家在协助生物医学研究人员方面有着悠久历史的公司 开发高度复杂的软件包和库，包括VTK，ITK，3D Slicer， ParaView。CIBC的成员过去曾与Kitware合作，因此有一个经过验证的 在此基础上，提出了实施过渡计划的建议。这种域的组合 在CIBC的二十年内对特定工具的具体知识，沿着能力 支持和部署软件和数据，将确保成功过渡， 这份遗产将永远流传下去