EEL Mouse 440 genes single cell data

<strong>Cell by gene matrix of the EEL mouse 440 gene experiment.</strong> Single cell data generated by EEL FISH on a saggital mouse brain section. The dataset is available in 3 file formats: .loom Loom file see: http://loompy.org/ .h5ad AnnData file see: https://anndata.readthedocs.io/en/latest/index.html .tab Tab-delimited file. <strong>Metadata</strong> Age - Age of animal. Codebook - Name of EEL codebook. ColorDict - Cell cluster color dictionary. Cycles - Number of barcoding cycles.<br> Expansion - Pixels the nuceli were expanded (pixelsize = 0.27um).<br> Expansion_um - Expansion of nuclei in micrometer.<br> Experiment - Experiment ID.<br> ExperimentDate - Date of experiment.<br> FOVoverlapPercentage - Overlap between field of view.<br> GenerationDate - Loom file generation date.<br> LOOM_SPEC_VERSION - Loompy version.<br> MaxHammingDist - maximum allowed Hamming distance.<br> Operator - Experiment operator.<br> Orientation - Cutting orientation.<br> Probes - Probe sequences file.<br> Protocol - Protocol used.<br> Quality - Manual evaluation of quality.<br> RNAfile - RNA file used<br> Removal - Method of removal of overlapping RNA in overlapping fields of view.<br> Sample - Sample ID<br> Segmentation - Segmentation algorithm.<br> Species - Species of sample.<br> Stitching - Field of view stitching method.<br> StitchingChannel - Between cycle alignment channel.<br> Strain - Strain of animal.<br> System - Microscope system used.<br> Tissue - Tissue in experiment.<br> TotalMolecules - Total number of molecules assigned to cells. <br> <strong>Column metadata</strong> X - X coordinate in pixels of 0.27um (multiply by 0.27 to get micrometer). X_um - X coordinate in micrometer. Y - Y coordinate in pixels of 0.27um (multiply by 0.27 to get micrometer). Y_um - Y coordinate in micrometer. tSNE_X - tSNE component 1. tSNE_Y - tSNE component 2. Clusters - Cluster label of each cell. TotalMolecules - Total molecules per cell. Cluster colors are saved as individual RGB values: R - Red. G - Green. B - Blue. (In the AnnData file, the tSNE and RGB values are availabe as a single array under "obsm" with keys "tSNE" and "RGB" respectively. ) <br> <strong>Row metadata</strong> Gene - Gene name. GeneTotal - Total number of detected molecules per gene.

<strong>小鼠EEL 440基因实验的细胞-基因矩阵</strong>。该数据集为通过EEL FISH技术对小鼠矢状脑切片获取的单细胞数据。本数据集提供三种格式的文件：.loom格式Loom文件（详见http://loompy.org/）、.h5ad格式AnnData文件（详见https://anndata.readthedocs.io/en/latest/index.html）以及.tab格式制表符分隔文件。<br><strong>元数据</strong><br>Age - 实验动物的年龄。<br>Codebook - EEL编码本名称。<br>ColorDict - 细胞簇颜色字典。<br>Cycles - 条形码循环次数。<br>Expansion - 细胞核扩增的像素数（像素尺寸=0.27μm）。<br>Expansion_um - 以微米为单位的细胞核扩增尺寸。<br>Experiment - 实验ID。<br>ExperimentDate - 实验日期。<br>FOVoverlapPercentage - 视野间重叠比例。<br>GenerationDate - Loom文件生成日期。<br>LOOM_SPEC_VERSION - Loompy版本号。<br>MaxHammingDist - 最大允许汉明距离。<br>Operator - 实验操作人员。<br>Orientation - 切片切割方向。<br>Probes - 探针序列文件。<br>Protocol - 所用实验方案。<br>Quality - 实验质量的人工评估结果。<br>RNAfile - 所用RNA文件。<br>Removal - 重叠视野中重叠RNA的去除方法。<br>Sample - 样本ID。<br>Segmentation - 细胞分割算法。<br>Species - 样本所属物种。<br>Stitching - 视野拼接方法。<br>StitchingChannel - 循环间对齐所用成像通道。<br>Strain - 实验动物品系。<br>System - 所用显微镜系统。<br>Tissue - 实验所用组织。<br>TotalMolecules - 分配至细胞的总分子数。<br><br><strong>列元数据</strong><br>X - 以0.27μm像素为单位的X坐标（乘以0.27即可转换为微米）。<br>X_um - 以微米为单位的X坐标。<br>Y - 以0.27μm像素为单位的Y坐标（乘以0.27即可转换为微米）。<br>Y_um - 以微米为单位的Y坐标。<br>tSNE_X - tSNE第一分量。<br>tSNE_Y - tSNE第二分量。<br>Clusters - 每个细胞的簇标签。<br>TotalMolecules - 单个细胞的总分子数。<br>细胞簇颜色以独立RGB值存储：R代表红色通道，G代表绿色通道，B代表蓝色通道。<br>（在AnnData文件中，tSNE和RGB值分别以数组形式存储于"obsm"字段下，键名分别为"tSNE"和"RGB"。）<br><br><strong>行元数据</strong><br>Gene - 基因名称。<br>GeneTotal - 单个基因的检测总分子数。