LayNii: A software suite for layer-fMRI
LayNii: A software suite for layer-fMRI
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DOI：
10.1016/j.neuroimage.2021.118091
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发表时间：
2021-05-22
期刊：
影响因子：
5.7
通讯作者：
Gulban, Omer Faruk
中科院分区：
文献类型：
--
作者：
Huber, Laurentius (Renzo);Poser, Benedikt A.;Gulban, Omer Faruk
亚毫米级的高分辨率功能性磁共振成像使研究人员能够非侵入性地解决大脑皮层层和柱的活动。虽然这些高分辨率数据使得有可能解决脑回路内和跨脑回路的定向信息流的新问题，但相应的数据分析受到MRI伪影的挑战，包括图像模糊、图像失真、低SNR和有限的覆盖范围。这些挑战通常导致传统分析管道的空间精度不足。在这里，我们介绍一个新的软件套件，是专门为特定层的功能性MRI：LayNii。这个工具箱是一个用C/C++编写的命令行可执行程序的集合，它是开源的，并作为Linux、Windows和macOS的预编译二进制文件分发。LayNii是专为层功能磁共振成像数据，遭受信噪比和覆盖范围的限制，因此不能直接分析在替代软件包。LayNii的一些最受欢迎的程序包含功能数据的原生体素空间中的“分层”和列化以及许多其他层fMRI特定的分析任务：层特定的平滑，GE-BOLD数据的基于模型的静脉缓解，伪影主导的亚毫米fMRI的质量评估，以及VASO数据的分析。
High-resolution fMRI in the sub-millimeter regime allows researchers to resolve brain activity across cortical layers and columns non-invasively. While these high -resolution data make it possible to address novel questions of directional information flow within and across brain circuits, the corresponding data analyses are challenged by MRI artifacts, including image blurring, image distortions, low SNR, and restricted coverage. These challenges often result in insufficient spatial accuracy of conventional analysis pipelines. Here we introduce a new software suite that is specifically designed for layer-specific functional MRI: LayNii. This toolbox is a collection of command-line executable programs written in C/C ++ and is distributed opensource and as pre-compiled binaries for Linux, Windows, and macOS. LayNii is designed for layer-fMRI data that suffer from SNR and coverage constraints and thus cannot be straightforwardly analyzed in alternative software packages. Some of the most popular programs of LayNii contain 'layerification' and columnarization in the native voxel space of functional data as well as many other layer-fMRI specific analysis tasks: layer-specific smoothing, model-based vein mitigation of GE-BOLD data, quality assessment of artifact dominated sub-millimeter fMRI, as well as analyses of VASO data.