Packages

906 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
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
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
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
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
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
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
org.Rn.eg.db Genome wide annotation for RatBioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	3,202	42
IlluminaHumanMethylation450kanno.ilmn12.hg19 Annotation for Illumina's 450k methylation arraysKasper Daniel Hansen	Kasper Daniel Hansen	annotation	no date on record	2,852	144
BSgenome.Hsapiens.UCSC.hg19 Full genome sequences for Homo sapiens (UCSC version hg19, based on GRCh37.p13)Bioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	2,842	58
GOstats Tools for manipulating GO and microarraysBioconductor Package Maintainer	Bioconductor Package Maintainer	software	28 Apr 2026	2,437	63
goseq Gene Ontology analyser for RNA-seq and other length biased dataFederico Marini	Federico Marini	software	28 Apr 2026	2,404	104
Category Category AnalysisBioconductor Package Maintainer	Bioconductor Package Maintainer	software	28 Apr 2026	2,355	57
TxDb.Mmusculus.UCSC.mm10.knownGene Annotation package for TxDb object(s)Bioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	2,192	75
BSgenome.Mmusculus.UCSC.mm10 Full genome sequences for Mus musculus (UCSC version mm10, based on GRCm38.p6)Bioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	2,152	58
hgu133a.db Affymetrix Affymetrix HG-U133A Array annotation data (chip hgu133a)Bioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	1,996	43
gage Generally Applicable Gene-set Enrichment for Pathway AnalysisWeijun Luo	Weijun Luo	software	28 Apr 2026	1,929	44