| Package | Title | Version |
| OrderedList | Similarities of Ordered Gene Lists | 1.5.6 |
| adSplit | Annotation-Driven Clustering | 1.3.0 |
| compdiagTools | Toolbox for performing and illustrating microarray data analyses | 1.5.3 |
| dcoex | Differential co-expression patterns in expression data | 0.9.9.7 |
| docval | Documenting microarray preprocessing 'by value'. | 1.0 |
| estrogen | 2x2 factorial design exercise for the Bioconductor short course | 1.5.0 |
| isis | Class Discovery | 2.0 |
| lymphoma | Simple exercises on cDNA handling with Alizadeh data | 1.5.0 |
| macat | MicroArray Chromosome Analysis Tool | 1.6.0 |
| nem | Nested Effects Models to reconstruct phenotypic hierarchies | 1.0.1 |
| oncomodel | Maximum likelihood tree models for oncogenesis | 0.7 |
| stam | Structured Analysis of Microarray Data | 1.5.0 |
| stjudem | Microarray Data from Yeoh et al. in MACAT format | 1.0 |
| twilight | Estimation of local false discovery rate | 1.9.2 |