Packages pages: Packages, [Assess](/assess.md), [Advisories](/advisories.md), [Licence library](/licences.md), [Checks](/checks.md), [Archived](/archived.md)

# Packages

Search: "view:ExperimentData release:3.7"

The search reads these keywords as filters. Other words are searched as written.

- `license:MIT`: the licence family, by its name or an old keyword such as GPL
- `downloads:>1000`: at least that many distinct IPs a month
- `view:Bayesian`: a biocViews term, up to three
- `category:software`: a Bioconductor category: software, annotation, experiment or workflows
- `maintainer:"Hadley Wickham"`: the packages a person maintains now. Alone, with no catalogue in the address, their page
- `owner:tidyverse`: packages developed in that GitHub account's repositories. Alone, with no catalogue in the address, its page
- `ai:claude`: packages whose repository shows signs of that AI coding tool, ai:any of any tool
- `ai-found:pr`: how a tool was found: file, ignore, pr or commits
- `ai-model:opus`: a model named in the credit lines of commits
- `repo:yes`: a source repository on record, or repo:no
- `since:2026-01-01`: the latest release on or after that day
- `letter:D`: names that start with that letter
- `release:3.22`: the packages of a Bioconductor release, or release:all for every package ever seen
- `status:removed`: Bioconductor packages removed after an earlier release, status:unreleased never in one
- `-checks:failing`: a minus before checks, license, view, maintainer, owner, ai, ai-model, letter, tests or category leaves those packages out, and before compiled, deadline or repo gives the other answer
- `in:bioc`: a catalogue: all, cran, bioc, archived, or datasets for Datasets' search
- `sort:downloads`: an order: name, downloads, updated, or relevance for words alone

Catalogue: Bioconductor.
- Bioconductor release: Release 3.7 (2018)
- biocViews term: ExperimentData
- Topic page: [ExperimentData](/topics/bioc/ExperimentData.md)

333 packages on Bioconductor, most distinct IPs first.

To search, add ?q=WORDS. To pick a catalogue, add catalogue=all, catalogue=cran or catalogue=bioc. To order the list, add sort=name, category, published, downloads, dependencies and order=asc or order=desc. Filters for Bioconductor: status (In the current release or not), release (Bioconductor release), category (Category), view (biocViews term), min_downloads (Distinct IPs a month), letter (First letter), license (Licence family offered), repository (Source repository on GitHub known), published_since (Latest version published on or after), maintainer (Maintainer), owner (Repository owner on GitHub), ai (AI coding tool), ai_found (AI tool found as), ai_model (Model named in commits). view takes up to three terms joined by commas, and lists packages tagged with any of them. min_downloads takes any whole number. maintainer takes a person's whole name and owner a GitHub login. ai takes any or a tool's key, ai_found file, ignore, pr or commits, and ai_model a model family's key, with the values and counts the page offers. not_ before the name of letter, license, check, task_view, tests, maintainer, owner, ai, ai_model, category or view leaves those packages out, as in not_check=problems.

| Package | Maintainer | Category | Latest version | Distinct IPs a month (sorted, high to low) | Needs |
| --- | --- | --- | --- | ---: | ---: |
| [ggtree](/bioc/ggtree.md) an R package for visualization of tree and annotation data | Guangchuang Yu | software | 29 Oct 2026 | 34,372 | 79 |
| [TCGAbiolinksGUI.data](/bioc/TCGAbiolinksGUI.data.md) Data for the TCGAbiolinksGUI package | Tiago Chedraoui Silva | experiment | 5 May 2026 | 5,758 | 0 |
| [ALL](/bioc/ALL.md) A data package | Robert Gentleman | experiment | 5 May 2026 | 4,171 | 7 |
| [HSMMSingleCell](/bioc/HSMMSingleCell.md) Single-cell RNA-Seq for differentiating human skeletal muscle myoblasts (HSMM) | Cole Trapnell | experiment | 5 May 2026 | 3,553 | 0 |
| [airway](/bioc/airway.md) RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014 | Michael Love | experiment | 5 May 2026 | 2,854 | 25 |
| [geneLenDataBase](/bioc/geneLenDataBase.md) Lengths of mRNA transcripts for a number of genomes | Federico Marini | experiment | 5 May 2026 | 2,378 | 98 |
| [scRNAseq](/bioc/scRNAseq.md) Collection of Public Single-Cell RNA-Seq Datasets | Aaron Lun | experiment | 5 May 2026 | 2,314 | 121 |
| [bcellViper](/bioc/bcellViper.md) Human B-cell transcriptional interactome and normal human B-cell expression data | Mariano Javier Alvarez | experiment | 5 May 2026 | 2,177 | 7 |
| [multiMiR](/bioc/multiMiR.md) Integration of multiple microRNA-target databases with their disease and drug associations | Spencer Mahaffey | software | 28 Apr 2026 | 1,569 | 53 |
| [pasilla](/bioc/pasilla.md) Data package with per-exon and per-gene read counts of RNA-seq samples of Pasilla knock-down by Brooks et al., Genome Research 2011. | Alejandro Reyes | experiment | 5 May 2026 | 1,554 | 108 |
| [tximportData](/bioc/tximportData.md) tximportData | Michael Love | experiment | 5 May 2026 | 1,330 | 0 |
| [cn.mops](/bioc/cn.mops.md) cn.mops - Mixture of Poissons for CNV detection in NGS data | Gundula Povysil | software | 28 Apr 2026 | 1,256 | 30 |
| [msdata](/bioc/msdata.md) Various Mass Spectrometry raw data example files | Steffen Neumann | experiment | 5 May 2026 | 1,252 | 0 |
| [affydata](/bioc/affydata.md) Affymetrix Data for Demonstration Purpose | Robert D Shear | experiment | 5 May 2026 | 1,244 | 12 |
| [golubEsets](/bioc/golubEsets.md) exprSets for golub leukemia data | Vince Carey | experiment | 5 May 2026 | 1,207 | 7 |
| [flowDensity](/bioc/flowDensity.md) Sequential Flow Cytometry Data Gating | Mehrnoush Malek | software | 28 Apr 2026 | 1,125 | 104 |
| [RNAseqData.HNRNPC.bam.chr14](/bioc/RNAseqData.HNRNPC.bam.chr14.md) Aligned reads from RNAseq experiment: Transcription profiling by high throughput sequencing of HNRNPC knockdown and control HeLa cells | Hervé Pagès | experiment | 5 May 2026 | 1,069 | 0 |
| [faahKO](/bioc/faahKO.md) Saghatelian et al. (2004) FAAH knockout LC/MS data | Steffen Neumann | experiment | 5 May 2026 | 1,061 | 144 |
| [bladderbatch](/bioc/bladderbatch.md) Bladder gene expression data illustrating batch effects | Jeffrey T. Leek | experiment | 5 May 2026 | 1,049 | 7 |
| [SeqSQC](/bioc/SeqSQC.md) A bioconductor package for sample quality check with next generation sequencing data | Qian Liu | software | 28 Apr 2026 | 1,001 | 113 |
| [pasillaBamSubset](/bioc/pasillaBamSubset.md) Subset of BAM files from "Pasilla" experiment | Hervé Pagès | experiment | 5 May 2026 | 997 | 0 |
| [GSVAdata](/bioc/GSVAdata.md) Data employed in the vignette of the GSVA package | Robert Castelo | experiment | 28 Jul 2026 | 955 | 78 |
| [curatedMetagenomicData](/bioc/curatedMetagenomicData.md) Curated Metagenomic Data of the Human Microbiome | Lucas schiffer | experiment | 5 May 2026 | 913 | 148 |
| [lmdme](/bioc/lmdme.md) Linear Model decomposition for Designed Multivariate Experiments | Cristobal Fresno | software | 28 Apr 2026 | 827 | 9 |
| [ExpressionAtlas](/bioc/ExpressionAtlas.md) Download datasets from EMBL-EBI Expression Atlas | Anil Thanki | software | 28 Apr 2026 | 827 | 64 |
| [pRolocdata](/bioc/pRolocdata.md) Data accompanying the pRoloc package | Lisa Breckels | experiment | 5 May 2026 | 825 | 135 |
| [ChAMPdata](/bioc/ChAMPdata.md) Data Packages for ChAMP package | Yuan Tian | experiment | 5 May 2026 | 816 | 11 |
| [minfiData](/bioc/minfiData.md) Example data for the Illumina Methylation 450k array | Kasper Daniel Hansen | experiment | 5 May 2026 | 788 | 146 |
| [flowWorkspaceData](/bioc/flowWorkspaceData.md) A data package containing two flowJo, one diva xml workspace and the associated fcs files as well as three GatingSets for testing the flowWorkspace, openCyto and CytoML packages. | Mike Jiang | experiment | 5 May 2026 | 784 | 0 |
| [humanStemCell](/bioc/humanStemCell.md) Human Stem Cells time course experiment | R. Gentleman | experiment | 5 May 2026 | 782 | 44 |

This page lists 1 to 30 of 333 packages. [Next](/packages.md?catalogue=bioc&release=3.7&view=ExperimentData&sort=downloads&page=2)

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R Observatory is independent of the R Project, CRAN and Bioconductor. The same page for people is at /packages?catalogue=bioc&release=3.7&view=ExperimentData, and every address is listed at /llms.txt.