Nuclear-expansion like approach

[maximilian-heeg]

Hi,

I was wondering if it is possible to tweak to Baysor parameters to get a nuclear expansion like approach. Basically, for our dataset, we have an extremely good DAPI segmentation, but only approximately 30% of the transcripts fall into the nucleus. However, running Baysor creates a lot more cells than expected, even if the prior-segmentation-confidence it set to 1. I have tried to change min_molecules_per_segment, but this did not seem to do the trick.

Would there be an easy way to do this?

Thanks again, Max