 The article provides a detailed workflow tutorial for single-cell RNA-seq analysis, including pre-processing steps such as quality control, normalization, data correction, feature selection, and dimensionality reduction, followed by cell and gene-level downstream analysis. The authors formulate current best practice recommendations based on independent comparison studies and integrate them into a workflow that is applied to a public dataset to illustrate its practical application. This article was authored by Morty D. Lucan and Fabian J. Teiss.