| PRISMA-package | Protocol Inspection and State Machine Analysis | 
| asap | The ASAP Data Set | 
| corpusToPrisma | Convert tm copus to PRISMA | 
| estimateDimension | Estimate Inner Dimension | 
| getDuplicateData | Restores Data with Duplicates | 
| getMatrixFactorizationLabels | Convert Coordinates of Matrix Factorization to Labels | 
| loadPrismaData | Load PRISMA Data Files | 
| plot.prisma | Generics For PRISMA Objects | 
| plot.prismaDimension | Generics For PRISMA Objects | 
| plot.prismaMF | Generics For PRISMA Objects | 
| print.prisma | Generics For PRISMA Objects | 
| print.prismaDimension | Generics For PRISMA Objects | 
| PRISMA | Protocol Inspection and State Machine Analysis | 
| prismaDuplicatePCA | Matrix Factorization Based on Replicate-Aware PCA | 
| prismaHclust | Matrix Factorization Based on Hierarchical Clustering | 
| prismaNMF | Matrix Factorization Based on Replicate-Aware NMF | 
| thesis | The Thesis Data Set |