EEL mouse sagittal atlas 168 genes spatial RNA data

<strong>Raw RNA locations of the mouse atlas produced by EEL FISH for 168 genes.</strong> <br> RNA files are in the .parquet format which can be opened with FISHscale (https://github.com/linnarsson-lab/FISHscale) or any other parquet file reader (https://arrow.apache.org/docs/index.html) <br> <strong>RNA .parquet files</strong> Seven sagittal sections of the mouse brain with 168 detected genes, sampled at the medial-lateral positions of -140 µm, 600 µm, 1200 µm, 1810 µm, 2420 µm, 3000 µm and 3600 µm measured from the midline. Position and gene label for all RNA molecules. "c_px_microscope_stitched" contains X coordinates. "r_px_microscope_stitched" contians Y coordinates. The unit are pixels with a size of 0.18 micrometer. Multiply by 0.18 to get um scale. "Valid" Boolean column where a 1 means that the molecule is detected inside the tissue section. A zero means the molecule is detected outside. <br> <strong>Tissue polygons .csv files</strong> CSV files demarking the sample borders for the 7 mouse atlas sections. -140 µm, 600 µm, 1200 µm, 1810 µm, 2420 µm, 3000 µm, 3600 µm. These polygons were used to generate the "Valid" column. If you want to make your own selection please have a look at the code in: https://github.com/linnarsson-lab/FISHscale/blob/master/FISHscale/utils/inside_polygon.py <br> <strong>Gene colors .pkl file</strong> Pickled Python dictionary with gene colors used in the paper for the mouse atlas.

<strong>由EEL FISH生成的小鼠图谱168个基因的原始RNA定位数据集。</strong><br>RNA数据文件采用.parquet格式，可通过FISHscale（https://github.com/linnarsson-lab/FISHscale）或任意其他parquet文件阅读器（https://arrow.apache.org/docs/index.html）打开。<br><strong>RNA .parquet数据文件</strong>本数据集包含7份小鼠脑矢状切片，共检出168个基因，采样位置为以中线为基准的内侧-外侧轴上的-140 µm、600 µm、1200 µm、1810 µm、2420 µm、3000 µm及3600 µm处。文件包含所有RNA分子的位置信息与基因标注信息。其中"c_px_microscope_stitched"字段存储X坐标，"r_px_microscope_stitched"字段存储Y坐标；坐标单位为像素，单个像素尺寸为0.18微米，将像素值乘以0.18即可转换为微米尺度。"Valid"为布尔型字段：取值为1时代表该RNA分子被检出于组织切片内部，取值为0则代表检出于切片外部。<br><strong>组织轮廓.csv数据文件</strong>此类CSV文件用于标注7份小鼠图谱切片的样本边界，对应采样位置与前述一致：-140 µm、600 µm、1200 µm、1810 µm、2420 µm、3000 µm及3600 µm。上述轮廓多边形用于生成"Valid"字段。若需自定义筛选规则，可参考以下代码：https://github.com/linnarsson-lab/FISHscale/blob/master/FISHscale/utils/inside_polygon.py<br><strong>基因配色.pkl数据文件</strong>该文件为序列化存储的Python字典，包含本研究论文中用于小鼠图谱可视化的基因配色方案。