BrainStorm: Highly Extensible Software for Advanced Electrophysiology and MEG/EEG Imaging

项目摘要/摘要 BrainStorm是一个Matlab/Java多平台(Linux、MacOS、Windows)软件环境，用于分析和 电生理(e-phys)数据的可视化。虽然最初专注于非侵入性脑电和脑磁图， BrainStorm现在还包括对更广泛的数据模式进行分析和高级可视化的工具： 颅内脑电包括ECOG、SEEG大电极记录、MUA和LFP微电极数据 动物模型中的人体和体外/体内制剂，以及非侵入性的近红外光谱数据。该软件应用广泛 在临床和认知神经科学研究中使用并发挥着越来越重要的作用 以下是过去十年的统计数据：1700篇发表的文章报道了利用头脑风暴进行的分析， 30,000个用户帐户，34,000个在线用户论坛上的帖子，以及大约2,000名学生、博士后和教师 全球各地都参加了面对面或在线头脑风暴培训活动。在过去的四年里，我们建立了 通过定义和实现与BIDS兼容的数据库结构来讨论BrainStorm的广泛功能 以及增加分布式数据资源上的云/高级计算工具。我们增加了改进 与其他EEG/MEG软件、领先的尖峰分类e-phys软件和硬件(包括 能够从多种商业文件数据格式导入)。我们还增加了与MRI的互操作性- 用于基于有限元的头部建模的分析软件和部署的工具。在这次续签中，我们将解决 目标1：支持自然主义和单项试验神经生理学研究的工具：有 引起、记录和分析神经反应的科学兴趣与日俱增 自然主义的刺激。这种类型的数据在记录变化很大的文件方面提出了特别的挑战， 不受控制的感觉事件和行为反应，带有机器和人类可读的注释，以及 将这种复杂的感官表现和行为与测量的大脑活动联系起来。因此，我们将发展 在自然主义神经科学的背景下准备和分析多模式电子物理数据的一套工具。 AIM2：入侵记录工具：我们将在当前项目期的开发基础上提供 有创记录的预处理和分析工具及基于有限元的颅内电磁场模拟 包括从X射线CT到MRI的复杂iEEG电极蒙太奇的标记、定位和联合配准， IEEG中发作间期特征的自动识别和标记，以及表征、定位和 来自iEEG的神经元来源的验证。目标3：软件增强、集成、维护、 培训和文件：我们将实行三管齐下的发展轨道：(一)以中心为基础的框架 其中第三方工具可以链接、运行并完全以集思广益为中心可视化结果； 我们现有的来源工具，以便用户可以保存分析历史，以便完全重现；以及(Iii) 提供与统计资料包的链接和互操作性，以促进严谨性。我们将继续发展 集思广益，提供多平台兼容性、基于Web的文档、用户论坛和实践培训。

PROJECT SUMMARY / ABSTRACT Brainstorm is a Matlab/Java multi-platform (Linux, MacOS, Windows) software environment for analysis and visualization of electrophysiological (e-phys) data. While originally focused on noninvasive EEG and MEG, Brainstorm now also includes tools for analysis and advanced visualization of a broader range of data modalities: intracranial EEG including ECOG, SEEG macroelectrode recordings, MUA and LFP microelectrode data in humans and in-vitro/in-vivo preparations in animal models, and noninvasive NIRS data. The software is widely used and plays an increasingly important role in clinical and cognitive neuroscience research as reflected in the following statistics over the past decade: 1,700 published articles reporting analyses performed with Brainstorm, 30,000 user accounts, 34,000 posts on the online user forum, and 2,000 students, postdocs and faculty around the globe have attended in-person or online Brainstorm training events. Over the past four years we have built on the extensive capabilities of Brainstorm by defining and implementing a BIDS-compatible database structure and adding tools for cloud/advanced computing over distributed data resources. We have added improved interfaces with other EEG/MEG software, leading spike-sorting e-phys software, and hardware (including the ability to import from multiple commercial file data formats). We have also added interoperability with MRI- analysis software and deployed tools for FEM-based head modeling. Under this renewal we will address the following: Aim 1: Enabling Tools for Naturalistic and Single-Trial Neurophysiology Studies: There is increasing scientific interest in eliciting, recording, and analyzing neural responses to non-repetitive and naturalistic stimuli. Data of this type present particular challenges in terms of documenting rigorously varied, uncontrolled sensory events and behavioral responses with machine and human readable annotations, and relating such complex sensory presentations and behavior to measured brain activity. We will therefore develop a suite of tools for preparing and analyzing multimodal e-phys data in the context of naturalistic neuroscience. Aim2: Tools for Invasive Recordings: We will build on developments in the current project period to provide tools for preprocessing and analysis of invasive recordings and FEM-based modeling of intracranial current fields including labelling, localization and co-registration of complex iEEG electrode montages from X-ray CT to MRI, automated identification and tagging of interictal features in iEEG, and characterization, localization and validation of neuronal sources from iEEG. Aim 3: Software Enhancement, Integration, Maintenance, Training, and Documentation: We will pursue a three-pronged development track: (i) a hub-based framework in which third-party tools can be linked, run and with results visualized entirely from Brainstorm as a hub; (ii) build on our existing provenance tools so that users can save analysis histories to allow full reproducibility; and (iii) provide links and interoperability with statistical packages to promote rigor. We will continue to develop Brainstorm with multiplatform compatibility, web-based documentation, user forums, and hands-on training.