Inconsistent results in SVGs identification compared to tutorial.ipynb

[aleksa1902]

Dear Dr. Hu,

I followed the tutorial.ipynb to identify SVGs in my dataset. However, I noticed that I am getting only 2 SVG solutions instead of the expected 5 as mentioned in the tutorial. A similar issue occurs when identifying meta genes.

Here are the steps: Preprocessed the data according to the tutorial instructions. Ran the SVG identification code from tutorial.ipynb. Expected to obtain 5 SVG solutions, but only received 2. I also noticed that when I run the tutorial in ez mode, the results are consistent with the expected solutions. It seems that there might be a discrepancy in the result.h5ad file used in tutorial.ipynb compared to the one provided for download.

I have attached a screenshot of the code and the obtained results for reference. Any insights into why I am experiencing these discrepancies and suggestions for resolving the issue would be greatly appreciated.

Screenshot:

Thank you for your help!