DeepSlice Source Data and Ground Truth datasets

Hi! Welcome to the DeepSlice data repository!This repository contains:Source data used to generate the graphs shown in Figures 1, 2 & 3 of Carey et al. (2023).Histological images and alignment data used to guide the development of, and assess the performance of, the DeepSlice algorithm.Code you can use to replicate the DeepSlice alignment filesSources data are organised in Excel spreadsheets, with data corresponding to each panel itemised in separate worksheets (Figure 1.xlsx, Figure 2.xlsx, Figure 3.xlsx).Histological images corresponding to Ground Truth datasets are saved in .Zip files.The following zip repositories are included:NameSource DOIGLT1a10.25493/Y147-2CEPcP210.25493/A2EG-VPRCamKII10.25493/W97C-01RCalb1http://mouse.brain-map.org/experiment/show/71717640β amyloidprovided by Yates et al. 10.3389/fninf.2019.00075Myelin10.25493/Y147-2CEPitx310.25493/DTB3-0KPThe GLT1a, PcP2, CamKII, Myelin & Pitx3 datasets are made available from eBrains via CC4.0 license. Calb1 dataset is courtesy of the Allen Institute for Brain Science. Allen Mouse Brain Atlas dataset# 71717640 Available from mouse.brain-map.org. Allen Institute for Brain Science (2011).The β amyloid dataset is courtesy of Yates et al.Alignment metadata, generated by human or DeepSlice, are provided as .xml and .csv files in corresponding Zip archives. To view human- or DeepSlice-generated alignments save image files and .xml files to the same directory and load in QuickNII (https://www.nitrc.org/projects/quicknii). The DeepSlice source code, and tools used to calculate differences in alignments, are available at https://github.com/PolarBean/DeepSliceWe hope you find this useful, either as a way of validating or replicating our work or as a means to quantify the performance of other alignment algorithms. Don't forget to cite our paper if you do!Harry Carey, Michael Pegios, Lewis Martin, Chris Saleeba, Anita J. Turner, Nicholas Everett, Maja A. Puchades, Jan G. Bjaalie & Simon McMullan (2023) DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas, Nature Communications, DOI:10.1038/s41467-023-41645-4

欢迎莅临 DeepSlice 数据仓库！本仓库包含：用于生成图 1、2 及 3 中所示图表的源数据；用于指导 DeepSlice 算法开发及性能评估的病理学图像及对齐数据；可复现 DeepSlice 对齐文件所需的代码。数据源以 Excel 表格形式组织，每个面板的数据分别列于单独的工作表中（图 1.xlsx、图 2.xlsx、图 3.xlsx）。对应于地面真实数据集的病理学图像保存在 .Zip 文件中。以下为包含的 zip 数据库：

名称
来源 DOI
GLT1a
10.25493/Y147-2CEPcP2
A2EG-VPRCamKII
10.25493/W97C-01RCalb1
http://mouse.brain-map.org/experiment/show/71717640
β-淀粉样蛋白
由 Yates 等提供，10.3389/fninf.2019.00075
髓磷脂
10.25493/Y147-2CEPitx3
10.25493/DTB3-0KP
GLT1a、PcP2、CamKII、髓磷脂及 Pitx3 数据集通过 eBrains 提供，采用 CC4.0 许可协议。Calb1 数据集由 Allen Institute for Brain Science 提供。Allen 小鼠脑图谱数据集# 71717640 可从 mouse.brain-map.org 获取。Allen Institute for Brain Science（2011）。
β-淀粉样蛋白数据集由 Yates 等提供。
由人工或 DeepSlice 生成对齐元数据提供为 .xml 和 .csv 文件，存储于相应的 Zip 归档中。为查看由人工或 DeepSlice 生成的对齐，请将图像文件和 .xml 文件保存在同一目录下，并在 QuickNII（https://www.nitrc.org/projects/quicknii）中加载。DeepSlice 源代码以及用于计算对齐差异的工具可在 https://github.com/PolarBean/DeepSlice 获取。我们希望这些数据对您有所帮助，无论是验证或复现我们的研究，还是评估其他对齐算法的性能。如需引用，请务必注明我们的论文！Harry Carey、Michael Pegios、Lewis Martin、Chris Saleeba、Anita J. Turner、Nicholas Everett、Maja A. Puchades、Jan G. Bjaalie 及 Simon McMullan（2023）DeepSlice：小鼠脑成像到体积图谱的快速全自动配准，自然通讯，DOI：10.1038/s41467-023-41645-4。