Do I need to do QC before demultiplexing hashtags with hashsolo?
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13 months ago
bioinfo ▴ 150

I was following the script from here: https://github.com/Rene2718/Long-term-engraftment-of-engineered-human-plasma-cells-/blob/main/sc_rnaseq_analysis/demultiplex.ipynb in order to demultiplex data with hashsolo. The demultiplexing seemed to have worked well. However, I was reading through the github of hashsolo and it mentions to use different priors if QC was not performed. Does that mean that I should change how I did the analysis since in the script that I found it does not seem like QC was performed first? Would it make a big difference?

If I do have to change the priors how would I specify it in the hashsolo.hashsolo(hto) command? I don't understand where to add the json file.

Thank you

scanpy hashtag hashsolo RNAseq • 517 views
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