what strategy is applied to select CB

[YOU-k]

Hi, I both ran dropseqpipe and Cellranger with emptydrops, but i just find that the cells selected quite differ. I would like to know what exactly you applied to select true cells from ambient RNA.
Thanks!

[Hoohm]

Hey @YOU-k
Our filters are based on either a provided whitelist or on the number of cells provided in the sample.csv file.

We don't perform any selection based on expression values for example. We prefer letting the user decide so that we don't skew the data as consensus on filtering is not totally stable yet.