This workshop will provide an overview of the fundamental bioinformatics analysis for single-cell experiments and the major challenges in the field. It will cover all the bioinformatic steps required for single-cell analysis; from the generation of the fastq file until we obtain biological insights, including pre-processing, data cleaning, visualization, cell assignment and downstream analysis. The goal of this workshop is to offer a practical hitchhiker’s guide to single-cell genomics analysis for biologists, using real-life examples.