Tractostorm 2: Optimizing tractography dissection reproducibility with segmentation protocol dissemination

Submissions for the Tractostorm 2 Project [1] from our collaborators (raters) are available for new analysis. Contains regions of interest (ROIs) as well as resulting bundles. Segmentations were performed with MI-Brain [2] (MI-Brain) Initial data is the same as in the initial Tractostorm Project [3] Contains the data as sent to collaborators and the written document containing the dissection protocol in detail. [1] Rheault, Francois, et al. "Tractostorm 2: Optimizing tractography dissection reproducibility with segmentation protocol dissemination." Human Brain Mapping (2022). [2] Rheault, Francois, et al. "MI-Brain, a software to handle tractograms and perform interactive virtual dissection." Proceedings of the ISMRM Diffusion study group workshop, Lisbon. 2016. [3] Rheault, Francois, et al. "Tractostorm: The what, why, and how of tractography dissection reproducibility." Human brain mapping 41.7 (2020): 1859-1874. Data Organization: The 5 HCP subjects were duplicated 4 times each. 193441 -> A111, B218, C317, D418 219231 -> A127, B228, C320, D426 286650 -> A136, B237, C338, D436 486759 -> A149, B246, C344, D443 615441 -> A156, B252, C359, D450 Bundles can be segmented automatically using the scilpy toolbox. scil_filter_tractogram.py ${INPUT} ${OUTPUT} ${OPTIONS} ${INPUT} would be the whole brain tractogram of an HCP subject in data_to_segment.zip ${OUTPUT} would be the bundle filename (preferably .trk format) ${OPTIONS} would be the sequence of ROIs to apply, one for each bundle. CC: '--drawn_roi CENTRAL_CC.nii.gz any include --drawn_roi LOWER_AXIAL_LIM.nii.gz any exclude --drawn_roi POST_C_L.nii.gz any exclude --drawn_roi PRE_C_L.nii.gz any exclude --drawn_roi POST_C_R.nii.gz any exclude --drawn_roi PRE_C_R.nii.gz any exclude' AF_L: '--drawn_roi CENTRAL_CS_L.nii.gz any include --drawn_roi MEDIAL_SAGITTAL_LIM.nii.gz any exclude --drawn_roi POST_C_L.nii.gz any include --drawn_roi PRE_C_L.nii.gz any include --drawn_roi TEMPORAL_ENTRY.nii.gz any include --drawn_roi TEMPORAL_STEM.nii.gz any exclude' PYT_L: '--drawn_roi IC_L.nii.gz any include --drawn_roi MO_L.nii.gz any include --drawn_roi MB_L.nii.gz any include --drawn_roi MO_L_NOT.nii.gz any exclude --drawn_roi MID_SAGITTAL_PLANE.nii.gz any exclude --drawn_roi POST_C_L.nii.gz any exclude --drawn_roi PRE_C_L.nii.gz any exclude'本数据集收录了合作方（评分者）提交的Tractostorm 2项目[1]的相关成果，可供开展全新分析。其包含感兴趣区（Regions of Interest, ROIs）以及最终生成的神经纤维束，所有分割操作均通过MI-Brain[2]完成。 本数据集的原始数据与初始Tractostorm项目[3]一致，包含发送给合作方的原始数据，以及详细记载神经纤维解剖操作方案的书面文档。 [1] Rheault, Francois 等. "Tractostorm 2: 基于分割方案推广优化神经纤维束解剖可重复性." *Human Brain Mapping* (2022). [2] Rheault, Francois 等. "MI-Brain：一款用于处理神经纤维束图并开展交互式虚拟解剖的软件." *ISMRM扩散研究组研讨会论文集*, 里斯本, 2016. [3] Rheault, Francois 等. "Tractostorm：神经纤维束解剖可重复性的内涵、原理与实现路径." *Human Brain Mapping* 41.7 (2020): 1859-1874. 数据组织： 本数据集涉及的5名人类连接组计划（Human Connectome Project, HCP）受试者的样本各重复4次，对应关系如下： 193441 → A111、B218、C317、D418 219231 → A127、B228、C320、D426 286650 → A136、B237、C338、D436 486759 → A149、B246、C344、D443 615441 → A156、B252、C359、D450 用户可通过scilpy工具箱自动分割神经纤维束，使用命令如下： scil_filter_tractogram.py ${INPUT} ${OUTPUT} ${OPTIONS} 其中： ${INPUT} 指代data_to_segment.zip中某名HCP受试者的全脑神经纤维束图； ${OUTPUT} 为神经纤维束文件名，推荐采用.trk格式； ${OPTIONS} 为待应用的感兴趣区序列，需与待分割的神经纤维束一一对应。 各神经纤维束对应的参数如下： CC（胼胝体, Corpus Callosum）：'--drawn_roi CENTRAL_CC.nii.gz any include --drawn_roi LOWER_AXIAL_LIM.nii.gz any exclude --drawn_roi POST_C_L.nii.gz any exclude --drawn_roi PRE_C_L.nii.gz any exclude --drawn_roi POST_C_R.nii.gz any exclude --drawn_roi PRE_C_R.nii.gz any exclude' AF_L（左侧弓状束, Arcuate Fasciculus Left）：'--drawn_roi CENTRAL_CS_L.nii.gz any include --drawn_roi MEDIAL_SAGITTAL_LIM.nii.gz any exclude --drawn_roi POST_C_L.nii.gz any include --drawn_roi PRE_C_L.nii.gz any include --drawn_roi TEMPORAL_ENTRY.nii.gz any include --drawn_roi TEMPORAL_STEM.nii.gz any exclude' PYT_L（左侧锥体束, Pyramidal Tract Left）：'--drawn_roi IC_L.nii.gz any include --drawn_roi MO_L.nii.gz any include --drawn_roi MB_L.nii.gz any include --drawn_roi MO_L_NOT.nii.gz any exclude --drawn_roi MID_SAGITTAL_PLANE.nii.gz any exclude --drawn_roi POST_C_L.nii.gz any exclude --drawn_roi PRE_C_L.nii.gz any exclude'