| Package | Maintainer | Title |
|---|---|---|
| ChemmineR | ChemmineR Team | Analysis of Small Molecule and Screening Data |
| clippda | Stephen Nyangoma | A package for the clinical proteomic profiling data analysis |
| IPPD | Martin Slawski | Isotopic peak pattern deconvolution for Protein Mass Spectrometry by template matching |
| LPEadj | Carl Murie | A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size. |
| MassSpecWavelet | Pan Du | Mass spectrum processing by wavelet-based algorithms |
| MSnbase | Laurent Gatto | MSnbase: Base Functions and Classes for MS-based Proteomics |
| PAnnBuilder | Li Hong | Protein annotation data package builder |
| PCpheno | Nolwenn Le Meur | Phenotypes and cellular organizational units |
| plgem | Norman Pavelka | Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM) |
| PLPE | Soo-heang Eo | Local Pooled Error Test for Differential Expression with Paired High-throughput Data |
| ppiStats | Tony Chiang | Protein-Protein Interaction Statistical Package |
| PROcess | Xiaochun Li | Ciphergen SELDI-TOF Processing |
| procoil | Ulrich Bodenhofer | Prediction of Oligomerization of Coiled Coil Proteins |
| RpsiXML | Jitao David Zhang | R interface to PSI-MI 2.5 files |
| ScISI | Tony Chiang | In Silico Interactome |
| SLGI | Nolwenn Le Meur | Synthetic Lethal Genetic Interaction |