| Function | Description |
| estimate.errors.mean | Estimate sequencing errors and compute corrected counts |
| extract.lib.from.zip | Functions for SAGE library extraction |
| read.sage.library | Class sage.library |
| read.sage.library.comparison | Class sage.library.comparison |
| sage.test | Compare Two SAGE Libraries |
| simulate.library | Simulate SAGE libraries |
| tagnum2tagmatrix | Utilities |