Workflows for pre-processing single-cell RNA-seq. See http://kallistobus.tools/ and
Páll Melsted, A. Sina Booeshaghi, Fan Gao, Eduardo Beltrame, Lambda Lu, Kristján Eldjárn Hjorleifsson, Jase Gehring and Lior Pachter, Modular and efficient pre-processing of single-cell RNA-seq, bioRxiv, 2019.