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Currently cellbender is the only tool available in the pipeline for empty droplet detection. nf-core/scrnaseq had emptydrops available in all versions <3.0.0, then the empty droplet detection was unified between nf-core/scrnaseq and nf-core/scdownstream through a shared subworkflow for cellbender empty droplet detection.
The old scrnaseq implementation of emptydrops can be used as a template for this purpose.
Check NBIS hackathon slides for more info
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