Packages
529 packages on Bioconductor tagged ExperimentData or DataRepresentation, most distinct IPs first
ExperimentData and DataRepresentation in Topics
| Package | Maintainer | Category | Latest version | Distinct IPs a month | Needs |
|---|---|---|---|---|---|
| S4Vectors Foundation of vector-like and list-like containers in BioconductorHervé Pagès | Hervé Pagès | software | 16 Sep 2026 | 74,754 | 7 |
| IRanges Foundation of integer range manipulation in BioconductorHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 68,817 | 8 |
| XVector Foundation of external vector representation and manipulation in BioconductorHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 63,837 | 10 |
| Biostrings Efficient manipulation of biological stringsHervé Pagès | Hervé Pagès | software | 2 Sep 2026 | 58,962 | 14 |
| DelayedArray A unified framework for working transparently with on-disk and in-memory array-like datasetsHervé Pagès | Hervé Pagès | software | 26 May 2026 | 57,500 | 20 |
| GenomicRanges Representation and manipulation of genomic intervalsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 56,974 | 10 |
| GenomeInfoDb Utilities for manipulating chromosome names, including modifying them to follow a particular naming styleHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 37,356 | 20 |
| ggtree an R package for visualization of tree and annotation dataGuangchuang Yu | Guangchuang Yu | software | 29 Oct 2026 | 34,372 | 79 |
| treeio Base Classes and Functions for Phylogenetic Tree Input and OutputGuangchuang Yu | Guangchuang Yu | software | 30 Apr 2026 | 31,966 | 39 |
| SingleCellExperiment S4 Classes for Single Cell DataDavide Risso | Davide Risso | software | 28 Apr 2026 | 24,483 | 25 |
| beachmat Compiling Bioconductor to Handle Each Matrix TypeAaron Lun | Aaron Lun | software | 28 Apr 2026 | 22,121 | 23 |
| sparseMatrixStats Summary Statistics for Rows and Columns of Sparse MatricesConstantin Ahlmann-Eltze | Constantin Ahlmann-Eltze | software | 28 Apr 2026 | 21,500 | 11 |
| HDF5Array HDF5 datasets as array-like objects in RHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 20,537 | 28 |
| DelayedMatrixStats Functions that Apply to Rows and Columns of 'DelayedMatrix' ObjectsPeter Hickey | Peter Hickey | software | 28 Apr 2026 | 19,969 | 23 |
| ScaledMatrix Creating a DelayedMatrix of Scaled and Centered ValuesAaron Lun | Aaron Lun | software | 28 Apr 2026 | 17,725 | 21 |
| BSgenome Software infrastructure for efficient representation of full genomes and their SNPsHervé Pagès | Hervé Pagès | software | 28 Apr 2026 | 14,375 | 57 |
| 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 |
| MultiAssayExperiment Software for the integration of multi-omics experiments in BioconductorMarcel Ramos | Marcel Ramos | software | 28 Apr 2026 | 9,523 | 45 |
| TCGAbiolinksGUI.data Data for the TCGAbiolinksGUI packageTiago Chedraoui Silva | Tiago Chedraoui Silva | experiment | 5 May 2026 | 5,758 | 0 |
| celldex Index of Reference Cell Type DatasetsAaron Lun | Aaron Lun | experiment | 5 May 2026 | 5,717 | 95 |
| ResidualMatrix Creating a DelayedMatrix of Regression ResidualsAaron Lun | Aaron Lun | software | 28 Apr 2026 | 5,559 | 21 |
| monocle Clustering, differential expression, and trajectory analysis for single- cell RNA-SeqCole Trapnell | Cole Trapnell | software | 28 Apr 2026 | 4,485 | 74 |
| zellkonverter Conversion Between scRNA-seq ObjectsLuke Zappia | Luke Zappia | software | 29 Apr 2026 | 4,278 | 41 |
| ALL A data packageRobert Gentleman | Robert Gentleman | experiment | 5 May 2026 | 4,171 | 7 |
| cytolib C++ infrastructure for representing and interacting with the gated cytometry dataMike Jiang | Mike Jiang | software | 28 Apr 2026 | 3,820 | 8 |
| HSMMSingleCell Single-cell RNA-Seq for differentiating human skeletal muscle myoblasts (HSMM)Cole Trapnell | Cole Trapnell | experiment | 5 May 2026 | 3,553 | 0 |
| TreeSummarizedExperiment TreeSummarizedExperiment: a S4 Class for Data with Tree StructuresRuizhu Huang | Ruizhu Huang | software | 28 Apr 2026 | 3,538 | 67 |
| maftools Summarize, Analyze and Visualize MAF FilesAnand Mayakonda | Anand Mayakonda | software | 28 Apr 2026 | 3,523 | 26 |
| interactiveDisplayBase Base package for enabling powerful shiny web displays of Bioconductor objects | no date on record | 2,988 |