Summary: High-throughput synthetic lethal RNA interference (RNAi) screen experiments shed important insights on the filed of cancer researches and drug discovery, but a comprehensive software for analyzing the data was not available yet. We present synlet, an R package provided a complete pipeline to process the synthetic lethal RNAi screens data. Synlet provides several methods to access the screen quality, including Z' factor and data visualization. B-score and fraction of control or samples normalization methods are implemented in the package. More importantly, synlet facilitates the process of hits selection by implementing several algorithms, providing the possibility to identify high confidence targets. Availability: The source code is freely available in Bioconductor (http://bioconductor.org/). Contact: c.shao@Dkfz-Heidelberg.de

Synlet: an R package for systemically analyzing synthetic lethal RNA interference screen data