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1,337 packages on Bioconductor tagged AnnotationData or Homo_sapiens or DifferentialExpression, most distinct IPs first

AnnotationData, Homo_sapiens and DifferentialExpression 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
DESeq2 Differential gene expression analysis based on the negative binomial distributionMichael Love	Michael Love	software	28 Apr 2026	32,072	54
org.Hs.eg.db Genome wide annotation for HumanBioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	29,813	42
fgsea Fast Gene Set Enrichment AnalysisAlexey Sergushichev	Alexey Sergushichev	software	28 Apr 2026	28,660	38
assorthead Assorted Header-Only C++ LibrariesAaron Lun	Aaron Lun	software	8 Oct 2026	19,436	0
multtest Resampling-based multiple hypothesis testingKatherine S. Pollard	Katherine S. Pollard	software	28 Apr 2026	14,457	15
org.Mm.eg.db Genome wide annotation for MouseBioconductor Package Maintainer	Bioconductor Package Maintainer	annotation	no date on record	13,520	42
ensembldb Utilities to create and use Ensembl-based annotation databasesJohannes Rainer	Johannes Rainer	software	25 May 2026	11,000	80
apeglm Approximate posterior estimation for GLM coefficientsAnqi Zhu	Anqi Zhu	software	28 Apr 2026	7,716	36
EnhancedVolcano Publication-ready volcano plots with enhanced colouring and labelingJared Andrews	Jared Andrews	software	28 Apr 2026	7,620	25
reactome.db A set of annotation maps for reactomeWillem Ligtenberg	Willem Ligtenberg	annotation	no date on record	7,578	42
TCGAbiolinks TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC dataTiago Chedraoui Silva	Tiago Chedraoui Silva	software	28 Apr 2026	6,750	103
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
siggenes Multiple Testing using SAM and Efron's Empirical Bayes ApproachesHolger Schwender	Holger Schwender	software	28 Apr 2026	4,901	17
slingshot Tools for ordering single-cell sequencingKelly Street	Kelly Street	software	28 Apr 2026	4,684	38
monocle Clustering, differential expression, and trajectory analysis for single- cell RNA-SeqCole Trapnell	Cole Trapnell	software	28 Apr 2026	4,485	74
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
oligo Preprocessing tools for oligonucleotide arraysBenilton Carvalho	Benilton Carvalho	software	28 Apr 2026	4,087	52
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
decoupleR decoupleR: Ensemble of computational methods to infer biological activities from omics dataPau Badia-i-Mompel	Pau Badia-i-Mompel	software	30 Oct 2025	3,634	41
EnsDb.Hsapiens.v86 Ensembl based annotation packageJohannes Rainer	Johannes Rainer	annotation	no date on record	3,389	81
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