Introduction to analysing microbial proteomics data in R

This tutorial is focused towards analysing microbial proteomics data. Most of the analysis is done using the DEP R package created by Arne Smits and Wolfgang Huber. Reference: Zhang X, Smits A, van Tilburg G, Ovaa H, Huber W, Vermeulen M (2018). “Proteome-wide identification of ubiquitin interactions using UbIA-MS.” Nature Protocols, 13, 530–550..

The data structure used by DEP is SummarizedExperiment. Contact: Sudarshan A. Shetty sudarshanshetty9[@]gmail[dot]com