Packages

Distinct IPs a month

• At least 500downloads:>500
• At least 1,000downloads:>1000
• At least 5,000downloads:>5000
• At least 10,000downloads:>10000

biocViews term

• AnnotationDataview:AnnotationData
• Softwareview:Software
• GeneExpressionview:GeneExpression
• Sequencingview:Sequencing
• Visualizationview:Visualization
• ImmunoOncologyview:ImmunoOncology
• RNASeqview:RNASeq
• Geneticsview:Genetics
• DifferentialExpressionview:DifferentialExpression
• DataImportview:DataImport
• SingleCellview:SingleCell
• AffymetrixChipview:AffymetrixChip
• Microarrayview:Microarray
• ExperimentDataview:ExperimentData
• Transcriptomicsview:Transcriptomics
• Clusteringview:Clustering
• Preprocessingview:Preprocessing
• Homo_sapiensview:Homo_sapiens
• Infrastructureview:Infrastructure
• QualityControlview:QualityControl
• Proteomicsview:Proteomics
• Classificationview:Classification
• Normalizationview:Normalization
• Transcriptionview:Transcription
• MultipleComparisonview:MultipleComparison
• StatisticalMethodview:StatisticalMethod
• ChipDbview:ChipDb
• GeneSetEnrichmentview:GeneSetEnrichment
• Networkview:Network
• Coverageview:Coverage
• DataRepresentationview:DataRepresentation
• oligoview:oligo
• Regressionview:Regression
• MassSpectrometryview:MassSpectrometry
• Annotationview:Annotation
• Pathwaysview:Pathways
• GraphAndNetworkview:GraphAndNetwork
• Metabolomicsview:Metabolomics
• Homo_sapiens_Dataview:Homo_sapiens_Data
• MicroarrayDataview:MicroarrayData
• DNAMethylationview:DNAMethylation
• GeneRegulationview:GeneRegulation
• cdfview:cdf
• Mus_musculusview:Mus_musculus
• ExperimentHubview:ExperimentHub
• BSgenomeview:BSgenome
• Epigeneticsview:Epigenetics
• Alignmentview:Alignment
• FunctionalGenomicsview:FunctionalGenomics
• SystemsBiologyview:SystemsBiology
• probeview:probe
• SequencingDataview:SequencingData
• ChIPSeqview:ChIPSeq
• DimensionReductionview:DimensionReduction
• Bayesianview:Bayesian
• CancerDataview:CancerData
• SNPview:SNP
• ExpressionDataview:ExpressionData
• BiomedicalInformaticsview:BiomedicalInformatics
• Spatialview:Spatial

Category

• Softwarecategory:software
• Annotation datacategory:annotation
• Experiment datacategory:experiment
• Workflowscategory:workflows

AI coding tool

• At least one foundai:any
• Claude Codeai:claude
• GitHub Copilotai:copilot
• Gemini CLIai:gemini
• Cursorai:cursor
• Antigravityai:antigravity
• Codexai:codex
• Julesai:jules
• Traeai:trae
• AGENTS.md, for any agentai:agents-md

AI tool found as

• Seen in the repositoryai-found:file
• Named in an ignore fileai-found:ignore
• Pull request by its own accountai-found:pr
• Commits by it or crediting itai-found:commits

Model named in commits

• Claude Opusai-model:opus
• Claude Sonnetai-model:sonnet
• Claude Fableai-model:fable
• Gemini Flashai-model:flash
• Claude Haikuai-model:haiku

Source repository on GitHub known

• Yesrepo:yes
• Norepo:no

In the current release or not

• In the current release
• Removed after an earlier releasestatus:removed
• Never in a releasestatus:unreleased
• Allstatus:all

Bioconductor release

• Current release
• Every package ever seenrelease:all
• Release 3.23 (2026)release:3.23
• Release 3.22 (2025)release:3.22
• Release 3.21 (2025)release:3.21
• Release 3.20 (2024)release:3.20
• Release 3.19 (2024)release:3.19
• Release 3.18 (2023)release:3.18
• Release 3.17 (2023)release:3.17
• Release 3.16 (2022)release:3.16
• Release 3.15 (2022)release:3.15
• Release 3.14 (2021)release:3.14
• Release 3.13 (2021)release:3.13
• Release 3.12 (2020)release:3.12
• Release 3.11 (2020)release:3.11
• Release 3.10 (2019)release:3.10
• Release 3.9 (2019)release:3.9
• Release 3.8 (2018)release:3.8
• Release 3.7 (2018)release:3.7
• Release 3.6 (2017)release:3.6
• Release 3.5 (2017)release:3.5
• Release 3.4 (2016)release:3.4
• Release 3.3 (2016)release:3.3
• Release 3.2 (2015)release:3.2
• Release 3.1 (2015)release:3.1
• Release 3.0 (2014)release:3.0
• Release 2.14 (2014)release:2.14
• Release 2.13 (2013)release:2.13
• Release 2.12 (2013)release:2.12
• Release 2.11 (2012)release:2.11
• Release 2.10 (2012)release:2.10
• Release 2.9 (2011)release:2.9
• Release 2.8 (2011)release:2.8
• Release 2.7 (2010)release:2.7
• Release 2.6 (2010)release:2.6
• Release 2.5 (2009)release:2.5
• Release 2.4 (2009)release:2.4
• Release 2.3 (2008)release:2.3
• Release 2.2 (2008)release:2.2
• Release 2.1 (2007)release:2.1
• Release 2.0 (2007)release:2.0
• Release 1.9 (2006)release:1.9
• Release 1.8 (2006)release:1.8
• Release 1.7 (2005)release:1.7
• Release 1.6 (2005)release:1.6
• Release 1.5 (2004)release:1.5
• Release 1.4 (2004)release:1.4
• Release 1.3 (2003)release:1.3
• Release 1.2 (2003)release:1.2
• Release 1.1 (2002)release:1.1
• Release 1.0 (2001)release:1.0