Single cell RNA-Sequencing (scRNA-Seq) provides a unique look into the function of tissue at the individual cell level. In this talk will show recent developments in kallisto for processing scRNA-Seq datasets and the newly developed BUS file format. The BUS format is intended as a technology-agnostic file format for intermediate results in scRNA-Seq, separating the problem of read processing and downstream analysis. BUS output can be generated efficiently using kallisto, and the results can be processed with BUSTools and technology specific notebooks written in high level languages.

This talk will cover the motivation, design, and generation of BUS format using kallisto as well as demonstrating the simplicity and speed of the downstream processing using Jupyter notebooks.