High-throughput screens (HTS) is one of the most promising tools in functional genomics and enables scientists to study genome-wide perturbations. Our previous work, HTSanalyzeR, provides a set of pipelines for integrated functional analysis, including gene set enrichment and network analysis, and presents the results as rich-text HTML pages with plots. Since its first release in 2011, it has become a popular software and is widely used by the community. Recent biotechnical developments like CRISPR enhanced the efficiency and applicability of HTS. In the meantime, new algorithms and technologies have facilitated computation significantly and brought a more convenient and powerful way to demonstrate the results as an interactive report.
Here we developed HTSanalyzeR2, supporting high-throughput CRISPR screens. We also increased its compatibility to work with most of the common species used in biomedical experiments and updated the computational module, fastening the calculation up to 1000X compared with the previous version. Besides the functional upgrade, HTSanalyzeR2 now presents results in an interactive web interface, which can be easily deployed to a Shiny server for further communication with biologists. HTSanalyzeR2 is an R package and is now available via GitHub at https://github.com/CityUHK-CompBio/HTSanalyzeR2.