| Package | Maintainer | Title |
|---|---|---|
| affycoretools | James W. MacDonald | Functions useful for those doing repetitive analyses with Affymetrix GeneChips. |
| DEGseq | Likun Wang | Identify Differentially Expressed Genes from RNA-seq data |
| eisa | Gabor Csardi | Expression data analysis via the Iterative Signature Algorithm |
| ExpressionView | Gabor Csardi | Visualize biclusters identified in gene expression data |
| goseq | Matthew Young | Gene Ontology analyser for RNA-seq and other length biased data |
| HTqPCR | Heidi Dvinge | Automated analysis of high-throughput qPCR data |
| LiquidAssociation | Yen-Yi Ho | LiquidAssociation |
| oligo | Benilton Carvalho | Preprocessing tools for oligonucleotide arrays. |
| pint | Olli-Pekka Huovilainen | Pairwise INTegration of functional genomics data |
| PROMISE | Xueyuan Cao | PRojection Onto the Most Interesting Statistical Evidence |
| qpcrNorm | Jessica Mar | Data-driven normalization strategies for high-throughput qPCR data. |
| qpgraph | Robert Castelo | Reverse engineering of molecular regulatory networks with qp-graphs |
| RmiR | Francesco Favero | Package to work with miRNAs and miRNA targets with R |
| RPA | Leo Lahti | RPA: probe reliability and differential gene expression analysis |
| RTools4TB | Aurelie Bergon | Data mining of public microarray data through connections to the TranscriptomeBrowser database. |
| siggenes | Holger Schwender | Multiple testing using SAM and Efron's empirical Bayes approaches |
| tigre | Antti Honkela | Transcription factor Inference through Gaussian process Reconstruction of Expression |
| xps | Christian Stratowa | Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays |