Packages
271 packages on Bioconductor tagged Spatial or MicroarrayData or ExperimentHub, most distinct IPs first
Spatial, MicroarrayData and ExperimentHub in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| SpatialExperiment S4 Class for Spatially Resolved -omics DataDario Righelli | Dario Righelli | software | 28 Apr 2026 | 10,718 | 64 |
| celldex Index of Reference Cell Type DatasetsAaron Lun | Aaron Lun | experiment | 5 May 2026 | 5,717 | 95 |
| scRNAseq Collection of Public Single-Cell RNA-Seq DatasetsAaron Lun | Aaron Lun | experiment | 5 May 2026 | 2,314 | 121 |
| 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 |
| Banksy Spatial transcriptomic clusteringJoseph Lee | Joseph Lee | software | 3 May 2026 | 1,166 | 109 |
| ggspavis Visualization functions for spatial transcriptomics dataLukas M. Weber | Lukas M. Weber | software | 16 Jul 2026 | 1,146 | 76 |
| SPOTlight `SPOTlight`: Spatial Transcriptomics DeconvolutionMarc Elosua-Bayes | Marc Elosua-Bayes | software | 28 Apr 2026 | 1,110 | 46 |
| imcRtools Methods for imaging mass cytometry data analysisDaniel Schulz | Daniel Schulz | software | 19 May 2026 | 1,064 | 181 |
| TENxPBMCData PBMC data from 10X GenomicsStephanie Hicks | Stephanie Hicks | experiment | 5 May 2026 | 1,056 | 83 |
| bladderbatch Bladder gene expression data illustrating batch effectsJeffrey T. Leek | Jeffrey T. Leek | experiment | 5 May 2026 | 1,049 | 7 |
| GeomxTools NanoString GeoMx ToolsMaddy Griswold | Maddy Griswold | software | 28 Apr 2026 | 1,009 | 123 |
| depmap Cancer Dependency Map Data PackageLaurent Gatto | Laurent Gatto | experiment | 5 May 2026 | 1,000 | 64 |
| spicyR Spatial analysis of in situ cytometry dataEllis Patrick | Ellis Patrick | software | 15 Oct 2026 | 916 | 241 |
| curatedMetagenomicData Curated Metagenomic Data of the Human MicrobiomeLucas schiffer | Lucas schiffer | experiment | 5 May 2026 | 913 | 148 |
| SpatialDecon Deconvolution of mixed cells from spatial and/or bulk gene expression dataMaddy Griswold | Maddy Griswold | software | 28 Apr 2026 | 902 | 135 |
| recountmethylation Access and analyze public DNA methylation array data compilationsSean K Maden | Sean K Maden | software | 28 Apr 2026 | 881 | 152 |
| sccomp Differential Composition and Variability Analysis for Single-Cell DataStefano Mangiola | Stefano Mangiola | software | 28 Apr 2026 | 872 | 76 |
| SpatialFeatureExperiment Integrating SpatialExperiment with Simple Features in sfLambda Moses | Lambda Moses | software | 28 Apr 2026 | 870 | 159 |
| Voyager From geospatial to spatial omicsLambda Moses | Lambda Moses | software | 28 Apr 2026 | 862 | 178 |
| DESpace DESpace: a framework to discover spatially variable genes and differential spatial patterns across conditionsPeiying Cai | Peiying Cai | software | 7 Oct 2026 | 852 | 122 |
| simpleSeg A package to perform simple cell segmentationEllis Patrick | Ellis Patrick | software | 28 Apr 2026 | 846 | 146 |
| msigdb An ExperimentHub Package for the Molecular Signatures Database (MSigDB)Dharmesh D. Bhuva | Dharmesh D. Bhuva | experiment | 5 May 2026 | 832 | 71 |
| standR Spatial transcriptome analyses of Nanostring's DSP data in RNing Liu | Ning Liu | software | 28 Apr 2026 | 827 | 141 |
| ExpressionAtlas Download datasets from EMBL-EBI Expression AtlasAnil Thanki | Anil Thanki | software | 28 Apr 2026 | 827 | 64 |
| nnSVG Scalable identification of spatially variable genes in spatially-resolved transcriptomics dataLukas M. Weber | Lukas M. Weber | software | 16 Jul 2026 | 816 | 79 |
| SPIAT Spatial Image Analysis of TissuesYuzhou Feng | Yuzhou Feng | software | 28 Apr 2026 | 814 | 110 |
| escheR Unified multi-dimensional visualizations with Gestalt principlesBoyi Guo | Boyi Guo | software | 28 Apr 2026 | 795 | 74 |
| minfiData Example data for the Illumina Methylation 450k arrayKasper Daniel Hansen | Kasper Daniel Hansen | experiment | 5 May 2026 | 788 | 146 |
| lisaClust lisaClust: Clustering of Local Indicators of Spatial AssociationEllis Patrick | Ellis Patrick | software | 28 Apr 2026 | 779 | 242 |