MSnbase is an R/Bioconductor package that provides infrastructure for plotting, data manipulation and processing of MS-based proteomics data. The official page is the Bioconductor landing page (release or devel versions). The github page page is for sharing, testing, issue tracking and forking/pulling purposes. Although it should be in sync with the code on the Bioconductor svn server, the latter is the official repository for the working source code.