Simulation of smFISH experiments on mouse lung tissue with simTissue

Simulations of smFISH experiments on mouse lung tissue simulated with the package simTissue (https://github.com/tdefa/SimTissue) These simulations are generated from scRNA-seq data and smFISH experemient from: Curras-Alonso, S., Soulier, J., Defard, T. et al. An interactive murine single-cell atlas of the lung responses to radiation injury. Nat Commun 14, 2445 (2023). https://doi.org/10.1038/s41467-023-38134-z the folder 'df_spots' contains the spot coordinates of each image:- The pixel scale zxy is [300, 0.108, 0.108] the column cell is the cell_id of the corresponding cell in the nucleus mask and cytoplasm mask. the folder 'cytoplasm' contains the cytoplasm masks.- some cells are simulated without a nucleus to better mimic smFISH tissue experiment the folder 'nuclei' contains the nucleus segmentation. Not all cells have a nucleus the folder 'dict_centroid' contains the coordinate of the centroid of each nucleus. the folder df_cell_type contains the ground truth cell type name of each cell Contact : [e-mail]本数据集包含使用simTissue工具包（https://github.com/tdefa/SimTissue）模拟生成的小鼠肺组织单分子荧光原位杂交（smFISH，single-molecule fluorescence in situ hybridization）实验仿真结果。 此项仿真基于单细胞RNA测序（scRNA-seq，single-cell RNA sequencing）数据与smFISH实验结果，源自以下研究：Curras-Alonso, S.、Soulier, J.、Defard, T. 等。《小鼠肺组织辐射损伤应答交互式单细胞图谱》，《自然-通讯》，14卷，2445页（2023年），DOI: 10.1038/s41467-023-38134-z。 各文件夹内容说明如下： 1. `df_spots`文件夹存储各图像的荧光斑点坐标：图像的像素尺度zxy为[300, 0.108, 0.108]；数据集中的`cell`字段对应细胞核掩码与细胞质掩码中目标细胞的细胞ID（cell_id）。 2. `cytoplasm`文件夹存储细胞质掩码。为更贴近真实smFISH组织实验场景，部分仿真细胞未配置细胞核。 3. `nuclei`文件夹存储细胞核分割掩码，并非所有细胞都拥有细胞核。 4. `dict_centroid`文件夹存储各细胞核的质心坐标。 5. `df_cell_type`文件夹存储各细胞的基准真值（ground truth）细胞类型标注。 联系方式：[e-mail]