About the pvalue.txt result

[SZ-qing]

Hi, I see it described in the pvalue result for method2 in the notebook as, cell_a|cell_b: 1 if interaction is detected as significant, 0 if not. But, in real output pvalue.txt result, contains values that are neither 0 nor 1. Is the value for the paired cell types in the pvalue.txt file the real p-value, or is it after processing based on the threshold？ Also, I saw that the pvaule.txt file was processed in the ktplot-py code, and found that the result of the pvalue was treated as the real pvalue. i'm a bit confused now

[SZ-qing]

The notebook web site: https://github.com/ventolab/CellphoneDB/blob/master/notebooks/T01_Method2_with_subsampling.ipynb

and the ktplot-py code: https://github.com/zktuong/ktplotspy/blob/master/ktplotspy/plot/plot_cpdb.py line 263

[ktroule]

Hi.

This is indeed wrong, this file contains the p-values derived from the random shuffling. I've modified the notebook.

Thanks for noting the error.