Using SoupX with non-integer counts

constantAmateur / SoupX

R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data

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Using SoupX with non-integer counts #135

Open me-orlov opened 1 year ago

me-orlov commented 1 year ago

Hello and thank you for the SoupX package!

I would like to use SoupX on data with non-integer counts that account for multi-mapping UMIs (such as those generated using the EM option in STARsolo). I don't see any reason why this should be a problem, but, having read about some issues with other packages and non-integer counts, wanted to make sure - is there anything within the internal algorithm that would cause issues with this?

Thank you in advance for your time.

nouhaylaeraysy commented 1 year ago

Hello, I started with SoupX me too i have the same problem did you manage to solve it? please if you have an idea response me. Thank you in advance.