Packages
335 packages on Bioconductor tagged ExperimentData or Epigenetics or DimensionReduction, most distinct IPs first
ExperimentData, Epigenetics and DimensionReduction in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| limma Linear Models for Microarray and Omics DataGordon Smyth | Gordon Smyth | software | 10 Aug 2026 | 45,965 | 6 |
| ggtree an R package for visualization of tree and annotation dataGuangchuang Yu | Guangchuang Yu | software | 29 Oct 2026 | 34,372 | 79 |
| edgeR Empirical Analysis of Digital Gene Expression Data in RYunshun Chen | Yunshun Chen | software | 19 Oct 2026 | 32,392 | 10 |
| scater Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan | Alan O'Callaghan | software | 2 Jul 2026 | 12,635 | 78 |
| bumphunter Bump HunterTamilselvi Guharaj | Tamilselvi Guharaj | software | 28 Apr 2026 | 4,268 | 83 |
| ALL A data packageRobert Gentleman | Robert Gentleman | experiment | 5 May 2026 | 4,171 | 7 |
| minfi Analyze Illumina Infinium DNA methylation arraysKasper Daniel Hansen | Kasper Daniel Hansen | software | 28 Apr 2026 | 4,041 | 143 |
| HSMMSingleCell Single-cell RNA-Seq for differentiating human skeletal muscle myoblasts (HSMM)Cole Trapnell | Cole Trapnell | experiment | 5 May 2026 | 3,553 | 0 |
| variancePartition Quantify and interpret drivers of variation in multilevel gene expression experimentsGabriel E. Hoffman | Gabriel E. Hoffman | software | 28 Apr 2026 | 3,211 | 99 |
| airway RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014Michael Love | Michael Love | experiment | 5 May 2026 | 2,854 | 25 |
| DiffBind Differential Binding Analysis of ChIP-Seq Peak DataRory Stark | Rory Stark | software | 21 Jul 2026 | 2,490 | 141 |
| geneLenDataBase Lengths of mRNA transcripts for a number of genomesFederico Marini | Federico Marini | experiment | 5 May 2026 | 2,378 | 98 |
| scRNAseq Collection of Public Single-Cell RNA-Seq DatasetsAaron Lun | Aaron Lun | experiment | 5 May 2026 | 2,314 | 121 |
| bcellViper Human B-cell transcriptional interactome and normal human B-cell expression dataMariano Javier Alvarez | Mariano Javier Alvarez | experiment | 5 May 2026 | 2,177 | 7 |
| DMRcate Methylation array and sequencing spatial analysis methodsTim Peters | Tim Peters | software | 3 May 2026 | 1,838 | 224 |
| pasilla Data package with per-exon and per-gene read counts of RNA-seq samples of Pasilla knock-down by Brooks et al., Genome Research 2011.Alejandro Reyes | Alejandro Reyes | experiment | 5 May 2026 | 1,554 | 108 |
| GENESIS GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with population structure and/or relatednessStephanie M. Gogarten | Stephanie M. Gogarten | software | 28 Apr 2026 | 1,444 | 117 |
| SC3 Single-Cell Consensus ClusteringVladimir Kiselev | Vladimir Kiselev | software | 28 Apr 2026 | 1,368 | 92 |
| tximportData tximportDataMichael Love | Michael Love | experiment | 5 May 2026 | 1,330 | 0 |
| RnBeads RnBeadsFabian Mueller | Fabian Mueller | software | 28 Apr 2026 | 1,302 | 170 |
| made4 Multivariate analysis of microarray data using ADE4Aedin Culhane | Aedin Culhane | software | 28 Apr 2026 | 1,279 | 38 |
| cn.mops cn.mops - Mixture of Poissons for CNV detection in NGS dataGundula Povysil | Gundula Povysil | software | 28 Apr 2026 | 1,256 | 30 |
| msdata Various Mass Spectrometry raw data example filesSteffen Neumann | Steffen Neumann | experiment | 5 May 2026 | 1,252 | 0 |
| affydata Affymetrix Data for Demonstration PurposeRobert D Shear | Robert D Shear | experiment | 5 May 2026 | 1,244 | 12 |
| golubEsets exprSets for golub leukemia dataVince Carey | Vince Carey | experiment | 5 May 2026 | 1,207 | 7 |
| pcaExplorer Interactive Visualization of RNA-seq Data Using a Principal Components ApproachFederico Marini | Federico Marini | software | 28 Apr 2026 | 1,192 | 230 |
| STATegRa Classes and methods for multi-omics data integrationDavid Gomez-Cabrero | David Gomez-Cabrero | software | 28 Apr 2026 | 1,187 | 46 |
| matter Out-of-core statistical computing and signal processingKylie A. Bemis | Kylie A. Bemis | software | 28 Apr 2026 | 1,168 | 24 |
| GOTHiC Binomial test for Hi-C data analysisBorbala Mifsud | Borbala Mifsud | software | 28 Apr 2026 | 1,161 | 86 |
| MethPed A DNA methylation classifier tool for the identification of pediatric brain tumor subtypesHelena Carén | Helena Carén | software | 28 Apr 2026 | 1,159 | 9 |