Packages
1,108 packages on Bioconductor tagged AnnotationData or ExperimentHub or GeneSetEnrichment, most distinct IPs first
AnnotationData, ExperimentHub and GeneSetEnrichment 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 |
| GenomeInfoDbData Species and taxonomy ID look up tables used by GenomeInfoDbBioconductor Maintainer | Bioconductor Maintainer | annotation | no date on record | 36,797 | 0 |
| GO.db A set of annotation maps describing the entire Gene OntologyBioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 33,694 | 42 |
| edgeR Empirical Analysis of Digital Gene Expression Data in RYunshun Chen | Yunshun Chen | software | 19 Oct 2026 | 32,392 | 10 |
| enrichplot Visualization of Functional Enrichment ResultGuangchuang Yu | Guangchuang Yu | software | 28 Sep 2026 | 30,370 | 128 |
| org.Hs.eg.db Genome wide annotation for HumanBioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 29,813 | 42 |
| clusterProfiler A Universal Enrichment Tool for Interpreting Omics DataGuangchuang Yu | Guangchuang Yu | software | 19 Oct 2026 | 29,661 | 138 |
| DOSE Disease Ontology Semantic and Enrichment analysisGuangchuang Yu | Guangchuang Yu | software | 28 Apr 2026 | 28,873 | 77 |
| fgsea Fast Gene Set Enrichment AnalysisAlexey Sergushichev | Alexey Sergushichev | software | 28 Apr 2026 | 28,660 | 38 |
| org.Mm.eg.db Genome wide annotation for MouseBioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 13,520 | 42 |
| GSEABase Gene set enrichment data structures and methodsBioconductor Package Maintainer | Bioconductor Package Maintainer | software | 28 Apr 2026 | 13,344 | 46 |
| GSVA Gene Set Variation Analysis for Microarray and RNA-Seq DataRobert Castelo | Robert Castelo | software | 25 Oct 2026 | 12,758 | 97 |
| ensembldb Utilities to create and use Ensembl-based annotation databasesJohannes Rainer | Johannes Rainer | software | 25 May 2026 | 11,000 | 80 |
| reactome.db A set of annotation maps for reactomeWillem Ligtenberg | Willem Ligtenberg | annotation | no date on record | 7,578 | 42 |
| ReactomePA Reactome Pathway AnalysisGuangchuang Yu | Guangchuang Yu | software | 28 Apr 2026 | 6,720 | 141 |
| TxDb.Hsapiens.UCSC.hg19.knownGene Annotation package for TxDb object(s)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 6,258 | 75 |
| celldex Index of Reference Cell Type DatasetsAaron Lun | Aaron Lun | experiment | 5 May 2026 | 5,717 | 95 |
| pathview a tool set for pathway based data integration and visualizationWeijun Luo | Weijun Luo | software | 28 Apr 2026 | 5,706 | 50 |
| HDO.db A set of annotation maps describing the entire Human Disease OntologyErqiang Hu | Erqiang Hu | annotation | no date on record | 5,277 | 42 |
| BSgenome.Hsapiens.UCSC.hg38 Full genomic sequences for Homo sapiens (UCSC genome hg38)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 4,989 | 60 |
| AUCell AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)Gert Hulselmans | Gert Hulselmans | software | 29 Apr 2026 | 4,610 | 115 |
| hgu133plus2.db Affymetrix Affymetrix HG-U133_Plus_2 Array annotation data (chip hgu133plus2)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 4,227 | 43 |
| TxDb.Hsapiens.UCSC.hg38.knownGene Annotation package for TxDb object(s)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 3,919 | 75 |
| MAST Model-based Analysis of Single Cell TranscriptomicsAndrew McDavid | Andrew McDavid | software | 28 Apr 2026 | 3,740 | 56 |
| EnsDb.Hsapiens.v86 Ensembl based annotation packageJohannes Rainer | Johannes Rainer | annotation | no date on record | 3,389 | 81 |
| topGO Enrichment Analysis for Gene OntologyFederico Marini | Federico Marini | software | 28 Apr 2026 | 3,228 | 48 |
| variancePartition Quantify and interpret drivers of variation in multilevel gene expression experimentsGabriel E. Hoffman | Gabriel E. Hoffman | software | 28 Apr 2026 | 3,211 | 99 |
| org.Rn.eg.db Genome wide annotation for RatBioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 3,202 | 42 |
| interactiveDisplayBase Base package for enabling powerful shiny web displays of Bioconductor objects | no date on record | 2,988 | |||
| singscore Rank-based single-sample gene set scoring methodMalvika Kharbanda | Malvika Kharbanda | software | 28 Apr 2026 | 2,915 | 120 |