Packages
231 packages on Bioconductor tagged SingleCell or Genetics or GeneSetEnrichment, most distinct IPs first
SingleCell, Genetics and GeneSetEnrichment in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| Biostrings Efficient manipulation of biological stringsHervé Pagès | Hervé Pagès | software | 2 Sep 2026 | 58,962 | 14 |
| GenomicRanges Representation and manipulation of genomic intervalsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 56,974 | 10 |
| limma Linear Models for Microarray and Omics DataGordon Smyth | Gordon Smyth | software | 10 Aug 2026 | 45,965 | 6 |
| edgeR Empirical Analysis of Digital Gene Expression Data in RYunshun Chen | Yunshun Chen | software | 19 Oct 2026 | 32,392 | 10 |
| GenomicFeatures Query the gene models of a given organism/assemblyH. Pagès | H. Pagès | software | 28 Apr 2026 | 19,218 | 74 |
| BSgenome Software infrastructure for efficient representation of full genomes and their SNPsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 14,375 | 57 |
| GSEABase Gene set enrichment data structures and methodsBioconductor Package Maintainer | Bioconductor Package Maintainer | software | 28 Apr 2026 | 13,344 | 46 |
| 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 |
| 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 |
| 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 |
| topGO Enrichment Analysis for Gene OntologyFederico Marini | Federico Marini | software | 28 Apr 2026 | 3,228 | 48 |
| 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 |
| gage Generally Applicable Gene-set Enrichment for Pathway AnalysisWeijun Luo | Weijun Luo | software | 28 Apr 2026 | 1,929 | 44 |
| safe Significance Analysis of Function and ExpressionLudwig Geistlinger | Ludwig Geistlinger | software | 3 May 2026 | 1,595 | 43 |
| qpgraph Estimation of Genetic and Molecular Regulatory Networks from High-Throughput Genomics DataRobert Castelo | Robert Castelo | software | 28 Apr 2026 | 1,495 | 81 |
| aCGH Classes and functions for Array Comparative Genomic Hybridization dataPeter Dimitrov | Peter Dimitrov | software | 28 Apr 2026 | 1,323 | 17 |
| attract Methods to Find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor LandscapeSamuel Zimmerman | Samuel Zimmerman | software | 28 Apr 2026 | 1,237 | 69 |
| TxDb.Dmelanogaster.UCSC.dm3.ensGene Annotation package for TxDb object(s)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 1,161 | 75 |
| MEDIPS DNA IP-seq data analysisLukas Chavez | Lukas Chavez | software | 28 Apr 2026 | 1,093 | 102 |
| goProfiles goProfiles: an R package for the statistical analysis of functional profilesAlex Sanchez | Alex Sanchez | software | 28 Apr 2026 | 1,065 | 47 |
| BSgenome.Hsapiens.NCBI.GRCh38 Full genome sequences for Homo sapiens (GRCh38)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 1,017 | 58 |
| BSgenome.Celegans.UCSC.ce2 Full genome sequences for Caenorhabditis elegans (UCSC version ce2)Bioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 1,010 | 58 |
| Homo.sapiens Annotation package for the Homo.sapiens objectBioconductor Package Maintainer | Bioconductor Package Maintainer | annotation | no date on record | 1,006 | 82 |
| genomeIntervals Operations on genomic intervalsJulien Gagneur | Julien Gagneur | software | 28 Apr 2026 | 1,004 | 12 |
| CoGAPS Coordinated Gene Activity in Pattern SetsElana J. Fertig | Elana J. Fertig | software | 28 Apr 2026 | 959 | 94 |