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dcjones / proseg

Probabilistic cell segmentation for in situ spatial transcriptomics
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About spurious coexpression metric for CosMx data #21

Closed yihming closed 2 months ago

yihming commented 5 months ago

Hello,

Thanks for developing this great tool!

When reading through your paper, in Figure 9, I see that you used the degree of spurious coexpression as one of the metrics to measure the segmentation quality of different methods, which was discussed in details in Section 3.2.3.

I just wonder if it is possible to share your implementation on this metric (or maybe I missed it if you had already made it public), so that we could also apply to our CosMx data to compare the methods. Thanks!

Sincerely, Yiming

dcjones commented 4 months ago

I'll definitely try to release some code to reproduce this analysis, I just don't have it in a very usable form right now.

yihming commented 4 months ago

Thank you in advance!