Freytag S, Lister R. (2019). schex avoids overplotting for large single-cell RNA-sequencing datasets. Bioinformatics. PMID: 31794001

Tian L, Dong X, Freytag S, Lê Cao K-A,Su  S, JalalAbadi A, Amann-Zalcenstein D, Weber T S, Seidi A, Jabbari J S, Naik S H, Ritchie Matthew E (2019). scRNA-seq mixology: towards better benchmarking of single cell RNA-seq analysis methods. Nature Methods. 16(6):479-487 PMID: 31133762

Freytag S, Tian L, Lönnstedt I, Ng M, Bahlo M (2018). Comparison of clustering tools in R for medium-sized 10x Genomics single-cell RNA-sequencing data. F1000Research. 7 PMID: 30228881

Freytag S,  Burgess R, Oliver KL, Bahlo M, (2017). brain-coX: investigating and visualising gene co-expression in seven human brain transcriptomic datasets. Genome Medicine. 9(1):55. PMID: 28595657