Packages
247 packages on Bioconductor tagged Spatial or MicroarrayData or DimensionReduction, most distinct IPs first
Spatial, MicroarrayData and DimensionReduction in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| BiocSingular Singular Value Decomposition for Bioconductor PackagesAaron Lun | Aaron Lun | software | 8 Oct 2026 | 18,880 | 37 |
| scater Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan | Alan O'Callaghan | software | 2 Jul 2026 | 12,635 | 78 |
| SpatialExperiment S4 Class for Spatially Resolved -omics DataDario Righelli | Dario Righelli | software | 28 Apr 2026 | 10,718 | 64 |
| Nebulosa Single-Cell Data Visualisation Using Kernel Gene-Weighted Density EstimationJose Alquicira-Hernandez | Jose Alquicira-Hernandez | software | 28 Apr 2026 | 2,000 | 83 |
| MOFA2 Multi-Omics Factor Analysis v2Ricard Argelaguet | Ricard Argelaguet | software | 6 Sep 2026 | 1,967 | 85 |
| zinbwave Zero-Inflated Negative Binomial Model for RNA-Seq DataDavide Risso | Davide Risso | software | 28 Apr 2026 | 1,569 | 74 |
| 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 |
| made4 Multivariate analysis of microarray data using ADE4Aedin Culhane | Aedin Culhane | software | 28 Apr 2026 | 1,279 | 38 |
| sesameData Supporting Data for SeSAMe PackageWanding Zhou | Wanding Zhou | experiment | 5 May 2026 | 1,250 | 72 |
| affydata Affymetrix Data for Demonstration PurposeRobert D Shear | Robert D Shear | experiment | 5 May 2026 | 1,244 | 12 |
| iSEE Interactive SummarizedExperiment ExplorerKevin Rue-Albrecht | Kevin Rue-Albrecht | software | 28 Apr 2026 | 1,237 | 109 |
| 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 |
| tricycle tricycle: Transferable Representation and Inference of cell cycleShijie Zheng | Shijie Zheng | software | 28 Apr 2026 | 1,163 | 111 |
| densvis Density-Preserving Data Visualization via Non-Linear Dimensionality ReductionAlan O'Callaghan | Alan O'Callaghan | software | 28 Apr 2026 | 1,150 | 26 |
| ggspavis Visualization functions for spatial transcriptomics dataLukas M. Weber | Lukas M. Weber | software | 16 Jul 2026 | 1,146 | 76 |
| scry Small-Count Analysis Methods for High-Dimensional DataKelly Street | Kelly Street | software | 28 Apr 2026 | 1,144 | 45 |
| SPOTlight `SPOTlight`: Spatial Transcriptomics DeconvolutionMarc Elosua-Bayes | Marc Elosua-Bayes | software | 28 Apr 2026 | 1,110 | 46 |
| weitrix Tools for matrices with precision weights, test and explore weighted or sparse dataPaul Harrison | Paul Harrison | software | 28 Apr 2026 | 1,089 | 76 |
| imcRtools Methods for imaging mass cytometry data analysisDaniel Schulz | Daniel Schulz | software | 19 May 2026 | 1,064 | 181 |
| bladderbatch Bladder gene expression data illustrating batch effectsJeffrey T. Leek | Jeffrey T. Leek | experiment | 5 May 2026 | 1,049 | 7 |
| snifter R wrapper for the python openTSNE libraryAlan O'Callaghan | Alan O'Callaghan | software | 28 Apr 2026 | 1,033 | 25 |
| M3Drop Michaelis-Menten Modelling of Dropouts in single-cell RNASeqTallulah Andrews | Tallulah Andrews | software | 28 Apr 2026 | 1,017 | 153 |
| GeomxTools NanoString GeoMx ToolsMaddy Griswold | Maddy Griswold | software | 28 Apr 2026 | 1,009 | 123 |
| CoGAPS Coordinated Gene Activity in Pattern SetsElana J. Fertig | Elana J. Fertig | software | 28 Apr 2026 | 959 | 94 |
| Pigengene Infers biological signatures from gene expression dataHabil Zare | Habil Zare | software | 28 Apr 2026 | 938 | 191 |
| spicyR Spatial analysis of in situ cytometry dataEllis Patrick | Ellis Patrick | software | 15 Oct 2026 | 916 | 241 |
| esetVis Visualizations of expressionSet Bioconductor objectLaure Cougnaud | Laure Cougnaud | software | 28 Apr 2026 | 910 | 55 |