Ground truth about simulating mouse brain

[Listen-lei]

Hello, thank you for your work. I have a questions:

For the simulated mouse brain and hippocampus data, that is, the GroundTruth image in Figure 5, how was it obtained? Through the content in the data set you gave us, we found that one simulation point corresponds to multiple cell types, and their combinations are more than 16 Kindly, can you give me some pointers to solve this problem?

good luck,
l1

[wwYinYin]

When simulating mouse brain and hippocampus data, we used Slide-seq datasets, which are spatial transcriptomic data at single-cell resolution. We set the grid on its original coordinate plane, and each point on the coordinate plane can be regarded as a cell. Each grid is simulated as a spot, and the cells falling within this grid are components of this simulated spot. For details on code implementation, you can refer to this: https://github.com/QuKunLab/SpatialBenchmarking/blob/main/SimulatedData.ipynb