R-bundle-Bioconductor 3.21-foss-2024a-R-4.5.0

R is a free software environment for statistical computing and graphics.

Accessing R-bundle-Bioconductor 3.21-foss-2024a-R-4.5.0

To load the module for R-bundle-Bioconductor 3.21-foss-2024a-R-4.5.0 please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2024a
module load R-bundle-Bioconductor/3.21-foss-2024a-R-4.5.0

BEAR Apps Version

2024a

Architectures

EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two parts: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

Extensions

• affxparser 1.80.0
• affy 1.86.0
• affycoretools 1.80.0
• affyio 1.78.0
• AgiMicroRna 2.58.0
• agricolae-1.3-7
• ALDEx2 1.40.0
• ALL 1.50.0
• ANCOMBC 2.10.1
• annaffy 1.80.0
• annotate 1.86.0
• AnnotationDbi 1.70.0
• AnnotationFilter 1.32.0
• AnnotationForge 1.50.0
• AnnotationHub 3.16.0
• anytime 0.3.11
• aroma.affymetrix 3.2.2
• aroma.apd 0.7.1
• aroma.core 3.3.1
• aroma.light 3.38.0
• ash-1.0-15
• assorthead 1.2.0
• ATACseqQC 1.32.0
• AUCell 1.30.1
• aws.s3 0.3.21
• aws.signature 0.6.0
• babelgene 22.9
• ballgown 2.40.0
• basilisk 1.20.0
• basilisk.utils 1.20.0
• batchelor 1.24.0
• baySeq 2.42.0
• beachmat 2.24.0
• Biobase 2.68.0
• BiocBaseUtils 1.10.0
• BiocFileCache 2.16.0
• BiocGenerics 0.54.0
• BiocIO 1.18.0
• BiocManager 1.30.25
• BiocNeighbors 2.2.0
• BiocParallel 1.42.1
• BiocSingular 1.24.0
• BiocStyle 2.36.0
• BiocVersion 3.21.1
• biomaRt 2.64.0
• biomformat 1.36.0
• Biostrings 2.76.0
• biovizBase 1.56.0
• blme-1.0-6
• bluster 1.18.0
• bookdown 0.43
• BSgenome 1.76.0
• BSgenome.Cfamiliaris.UCSC.canFam3 1.4.0
• BSgenome.Hsapiens.UCSC.hg19 1.4.3
• BSgenome.Hsapiens.UCSC.hg38 1.4.5
• BSgenome.Mmusculus.UCSC.mm10 1.4.3
• bsseq 1.44.1
• bumphunter 1.50.0
• ca 0.71.1
• CAGEfightR 1.28.0
• CAGEr 2.14.0
• CAMERA 1.64.0
• Category 2.74.0
• ccdata 1.34.0
• ccmap 1.34.0
• CGHbase 1.68.0
• CGHcall 2.70.0
• ChIPpeakAnno 3.42.0
• ChIPseeker 1.44.0
• chromVAR 1.30.1
• clusterProfiler 4.16.0
• CNEr 1.43.0
• coloc 5.2.3
• colorRamps 2.3.4
• ComplexHeatmap 2.24.0
• ConsensusClusterPlus 1.72.0
• conumee 1.42.0
• cummeRbund 2.50.0
• cytolib 2.20.0
• CytoML 2.20.0
• dada2 1.36.0
• ddPCRclust 1.28.0
• DECIPHER 3.4.0
• DeconRNASeq 1.50.0
• decontam 1.28.0
• decoupleR 2.14.0
• DEGseq 1.62.0
• DelayedArray 0.34.1
• DelayedMatrixStats 1.30.0
• densEstBayes-1.0-2.2
• derfinder 1.42.0
• derfinderHelper 1.42.0
• DESeq2 1.48.1
• DEXSeq 1.54.1
• diffcyt 1.28.0
• dir.expiry 1.16.0
• directlabels 2025.5.20
• DirichletMultinomial 1.50.0
• DMRcaller 1.40.0
• DNABarcodes 1.38.0
• DNAcopy 1.82.0
• DO.db 2.9
• docopt 0.7.2
• DOSE 4.2.0
• dqrng 0.4.1
• DRIMSeq 1.36.0
• DropletUtils 1.28.0
• DSS 2.56.0
• dupRadar 1.38.0
• DynDoc 1.86.0
• EBImage 4.50.0
• edgeR 4.6.2
• egg 0.4.5
• enrichplot 1.28.2
• EnsDb.Hsapiens.v75 2.99.0
• EnsDb.Hsapiens.v79 2.99.0
• EnsDb.Hsapiens.v86 2.99.0
• ensembldb 2.32.0
• escape 2.4.0
• ExperimentHub 2.16.0
• extraDistr 1.10.0
• factoextra 1.0.7
• fANCOVA-0.6-1
• fastseg 1.54.0
• fda 6.3.0
• FDb.InfiniumMethylation.hg19 2.2.0
• fds 1.8
• feature 1.2.15
• fgsea 1.34.0
• filelock 1.0.3
• fillpattern 1.0.2
• flowAI 1.38.0
• flowClean 1.46.0
• flowClust 3.46.0
• flowCore 2.20.0
• flowDensity 1.42.0
• flowFP 1.66.0
• flowMerge 2.56.0
• flowPeaks 1.54.0
• FlowSOM 2.16.0
• FlowSorted.Blood.EPIC 2.12.0
• FlowSorted.CordBloodCombined.450k 1.24.0
• flowStats 4.20.0
• flowViz 1.72.0
• flowWorkspace 4.20.0
• FRASER 2.4.1
• fresh 0.2.1
• gcrma 2.80.0
• gdsfmt 1.44.0
• genefilter 1.90.0
• geneLenDataBase 1.44.0
• geneplotter 1.86.0
• GENESIS 2.38.0
• GENIE3 1.30.0
• genomation 1.40.1
• GenomeInfoDb 1.44.0
• GenomeInfoDbData 1.2.14
• GenomicAlignments 1.44.0
• GenomicFeatures 1.60.0
• GenomicFiles 1.44.1
• GenomicInteractions 1.42.0
• GenomicRanges 1.60.0
• GenomicScores 2.20.0
• GEOmap-2.5-11
• GEOquery 2.76.0
• ggbio 1.56.0
• ggcyto 1.36.0
• ggdendro 0.2.0
• ggnewscale 0.5.1
• ggpicrust2 2.1.2
• ggpointdensity 0.2.0
• ggrastr 1.0.2
• ggseqlogo 0.2
• ggtangle 0.0.6
• ggtext 0.1.2
• ggthemes 5.1.0
• ggtree 3.16.0
• GLAD 2.72.0
• Glimma 2.18.0
• GlobalAncova 4.26.0
• globaltest 5.62.0
• GO.db 3.21.0
• GOSemSim 2.34.0
• goseq 1.60.0
• GOstats 2.74.0
• graph 1.86.0
• graphite 1.54.0
• gridtext 0.1.5
• GSEABase 1.70.0
• gsignal-0.3-7
• gsmoothr 0.1.7
• gson 0.1.0
• GSVA 2.2.0
• Gviz 1.52.0
• GWASExactHW 1.2
• GWASTools 1.54.0
• h5mread 1.0.1
• hahmmr 1.0.0
• HDF5Array 1.36.0
• HDO.db 1.0.0
• hdrcde 3.4
• heatmaply 1.5.0
• hgu133plus2.db 3.13.0
• hiAnnotator 1.42.0
• HiCBricks 1.26.0
• HiCcompare 1.30.0
• HMMcopy 1.50.0
• Homo.sapiens 1.3.1
• IHW 1.36.0
• IlluminaHumanMethylation450kanno.ilmn12.hg19 0.6.1
• IlluminaHumanMethylation450kmanifest 0.4.0
• IlluminaHumanMethylationEPICanno.ilm10b2.hg19 0.6.0
• IlluminaHumanMethylationEPICanno.ilm10b4.hg19 0.6.0
• IlluminaHumanMethylationEPICmanifest 0.3.0
• IlluminaHumanMethylationEPICv2anno.20a1.hg38 1.0.0
• IlluminaHumanMethylationEPICv2manifest 1.0.0
• illuminaio 0.50.0
• impute 1.82.0
• InteractionSet 1.36.1
• interactiveDisplayBase 1.46.0
• intervals 0.15.5
• IRanges 2.42.0
• isva 1.9
• JASPAR2020 0.99.10
• KEGGgraph 1.68.0
• KEGGREST 1.48.0
• LEA 3.20.0
• lefser 1.18.0
• leidenbase 0.1.35
• limma 3.64.1
• log4r 0.4.4
• lpsymphony 1.36.0
• lsa 0.73.3
• lumi 2.60.0
• M3Drop 1.34.0
• Maaslin2 1.22.0
• marray 1.86.0
• maSigPro 1.80.0
• MassSpecWavelet 1.74.0
• MatrixGenerics 1.20.0
• MBA-0.1-2
• MEDIPS 1.60.0
• MetaboCoreUtils 1.16.1
• metagenomeSeq 1.50.0
• metaMA 3.1.3
• metap 1.12
• metapod 1.16.0
• methylKit 1.34.0
• MethylSeekR 1.48.0
• methylumi 2.54.0
• Mfuzz 2.68.0
• mia 1.16.0
• minfi 1.54.1
• missMethyl 1.42.0
• mixOmics 6.32.0
• mixsqp-0.3-54
• MLInterfaces 1.88.1
• MotifDb 1.50.0
• motifmatchr 1.30.0
• motifStack 1.52.0
• MsCoreUtils 1.20.0
• MsExperiment 1.10.0
• MsFeatures 1.16.0
• msigdb 1.16.0
• msigdbr 24.1.0
• MSnbase 2.34.1
• MSstats 4.16.0
• MSstatsConvert 1.18.0
• MSstatsLiP 1.14.1
• MSstatsPTM 2.10.0
• MSstatsTMT 2.16.0
• MultiAssayExperiment 1.34.0
• MultiDataSet 1.36.0
• multtest 2.64.0
• muscat 1.22.0
• mutoss-0.1-13
• mzID 1.46.0
• mzR 2.42.0
• NADA-1.6-1.1
• ncdfFlow 2.54.0
• NMF 0.28
• NOISeq 2.52.0
• numbat 1.4.2
• oligo 1.72.0
• oligoClasses 1.70.0
• ontologyIndex 2.12
• oompaBase 3.2.10
• oompaData 3.1.5
• openCyto 2.20.0
• org.Hs.eg.db 3.21.0
• org.Mm.eg.db 3.21.0
• org.Rn.eg.db 3.21.0
• OrganismDbi 1.50.0
• OUTRIDER 1.26.1
• pathview 1.48.0
• pcaMethods 2.0.0
• perm-1.0-0.4
• PFAM.db 3.21.0
• phyloseq 1.52.0
• plyranges 1.28.0
• pmp 1.20.0
• poweRlaw 1.0.0
• preprocessCore 1.70.0
• pRoloc 1.48.0
• pRolocdata 1.46.0
• pRolocGUI 2.18.0
• ProtGenerics 1.40.0
• PRROC 1.4
• PSCBS 0.68.0
• PSMatch 1.12.0
• PureCN 2.14.1
• pwalign 1.4.0
• qap-0.1-2
• QDNAseq 1.44.0
• QFeatures 1.18.0
• qlcMatrix 0.9.8
• qqconf 1.3.2
• quantsmooth 1.74.0
• qvalue 2.40.0
• R.devices 2.17.2
• R.filesets 2.15.1
• R.huge 0.10.1
• rainbow 3.8
• randomcoloR 1.1.0.1
• RBGL 1.84.0
• rbiom 2.2.0
• RcisTarget 1.28.1
• RcppAnnoy 0.0.22
• RcppHNSW 0.6.0
• RcppML 0.3.7
• RcppZiggurat 0.1.8
• reactome.db 1.92.0
• ReactomePA 1.52.0
• regioneR 1.40.1
• reldist-1.7-2
• remaCor 0.0.18
• Repitools 1.54.0
• ReportingTools 2.48.0
• ResidualMatrix 1.18.0
• restfulr 0.0.15
• Rfast 2.1.5.1
• RFOC-3.4-10
• rGADEM 2.55.0
• Rgraphviz 2.52.0
• rhdf5 2.52.0
• rhdf5filters 1.20.0
• Rhdf5lib 1.30.0
• Rhtslib 3.4.0
• RNASeqPower 1.48.0
• RnBeads 2.26.0
• RnBeads.hg19 1.40.0
• RnBeads.hg38 1.40.0
• RnBeads.mm10 2.16.0
• RnBeads.mm9 1.40.0
• RnBeads.rn5 1.40.0
• ROC 1.84.0
• rols 3.4.0
• ROntoTools 2.36.0
• ropls 1.40.0
• RPMG-2.2-7
• RProtoBufLib 2.20.0
• Rsamtools 2.24.0
• RSEIS-4.2-4
• Rsubread 2.22.1
• rsvd 1.0.5
• rtracklayer 1.68.0
• Rwave-2.6-5
• S4Arrays 1.8.1
• S4Vectors 0.46.0
• samr 3.0
• SamSPECTRAL 1.62.0
• SC3 1.36.0
• ScaledMatrix 1.16.0
• SCANVIS 1.22.0
• scater 1.36.0
• scattermore 1.2
• scDblFinder 1.22.0
• scistreer 1.2.0
• scran 1.36.0
• scrime 1.3.5
• scuttle 1.18.0
• SeqArray 1.48.0
• seqLogo 1.74.0
• seqPattern 1.40.0
• SeqVarTools 1.46.0
• seriation 1.5.7
• Seurat 5.3.0
• SeuratObject 5.1.0
• shinyBS 0.61.1
• shinydashboardPlus 2.0.5
• shinyFiles 0.9.3
• shinyhelper 0.3.2
• shinypanel 0.1.5
• shinyWidgets 0.9.0
• ShortRead 1.66.0
• siggenes 1.82.0
• Signac 1.14.0
• SimBu 1.10.0
• simona 1.6.0
• simplifyEnrichment 2.2.0
• SingleCellExperiment 1.30.1
• SingleR 2.10.0
• sitmo 2.0.2
• slingshot 2.16.0
• SMVar 1.3.4
• SNPRelate 1.42.0
• snpStats 1.58.0
• SparseArray 1.8.0
• sparseMatrixStats 1.20.0
• sparsesvd-0.2-2
• SpatialExperiment 1.18.1
• Spectra 1.18.2
• SPIA 2.60.0
• splancs-2.01-45
• SPOTlight 1.12.1
• stageR 1.30.1
• struct 1.20.1
• structToolbox 1.20.0
• SummarizedExperiment 1.38.1
• susieR 0.14.1
• sva 3.56.0
• TailRank 3.2.4
• TFBSTools 1.46.0
• TFMPvalue 0.0.9
• tkWidgets 1.86.0
• TrajectoryUtils 1.16.1
• treeio 1.32.0
• TreeSummarizedExperiment 2.16.1
• TSP-1.2-5
• TxDb.Hsapiens.UCSC.hg19.knownGene 3.2.2
• TxDb.Mmusculus.UCSC.mm10.knownGene 3.10.0
• txdbmaker 1.4.1
• tximport 1.36.0
• UCell 2.12.0
• UCSC.utils 1.4.0
• universalmotif 1.26.2
• uwot 0.2.3
• variancePartition 1.38.0
• VariantAnnotation 1.54.1
• venn 1.12
• vsn 3.76.0
• waiter 0.2.5
• wateRmelon 2.14.0
• WGCNA 1.73
• widgetTools 1.86.0
• Wrench 1.26.0
• xcms 4.6.0
• XVector 0.48.0
• zCompositions-1.5.0-4
• zellkonverter 1.18.0
• zigg 0.0.2
• zlibbioc 1.54.0

More Information

For more information visit the R-bundle-Bioconductor website.

Other Versions

These versions of R-bundle-Bioconductor are available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 7th June 2025