| Package | Maintainer | Title |
|---|---|---|
| affycoretools | James W. MacDonald | Functions useful for those doing repetitive analyses with Affymetrix GeneChips. |
| AffyExpress | Xuejun Arthur Li | Affymetrix Quality Assessment and Analysis Tool |
| annaffy | Colin A. Smith | Annotation tools for Affymetrix biological metadata |
| arrayQualityMetrics | Audrey Kauffmann | Quality metrics on microarray data sets |
| ArrayTools | Arthur Li | geneChip Analysis Package |
| DynDoc | Biocore Team c/o BioC user list | Dynamic document tools |
| exonmap | Crispin Miller | High level analysis of Affymetrix exon array data (DEPRECATED please use xmapcore) |
| Harshlight | Maurizio Pellegrino | A "corrective make-up" program for microarray chips |
| R453Plus1Toolbox | Hans-Ulrich Klein | A package for importing and analyzing data from Roche's Genome Sequencer System. |
| rnaSeqMap | Michal Okoniewski | rnaSeq analyses using xmapcore database |
| simpleaffy | Crispin Miller | Very simple high level analysis of Affymetrix data |
| SpeCond | Florence Cavalli | Condition specific detection from expression data |
| xmapbridge | Tim Yates | Export plotting files to the xmapBridge for visualisation in X:Map |
| xmapcore | Tim Yates | Core access to the xmap database (installed separately) |
| yaqcaffy | Laurent Gatto | Affymetrix expression data quality control and reproducibility analysis |