R-bundle-Bioconductor 3.10-fosscuda-2019b-R-3.6.2

Unsupported: Use of this version of R-bundle-Bioconductor is not supported. More information on our Applications Support and Retention Policy.

There is a newer version of R-bundle-Bioconductor

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

Accessing R-bundle-Bioconductor 3.10-fosscuda-2019b-R-3.6.2

To load the module for R-bundle-Bioconductor 3.10-fosscuda-2019b-R-3.6.2 please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load bear-apps-unsupported/handbuilt/2019
module load R-bundle-Bioconductor/3.10-fosscuda-2019b-R-3.6.2

There is a CPU version of this module: R-bundle-Bioconductor 3.10-foss-2019b-R-3.6.2

BEAR Apps Version

2019h

Extensions

  • admisc 0.5
  • affy 1.64.0
  • affycoretools 1.58.4
  • affyio 1.56.0
  • AgiMicroRna 2.36.0
  • ALDEx2 1.18.0
  • annaffy 1.58.0
  • annotate 1.64.0
  • AnnotationDbi 1.48.0
  • AnnotationFilter 1.10.0
  • AnnotationForge 1.28.0
  • AnnotationHub 2.18.0
  • aroma.affymetrix 3.2.0
  • aroma.apd 0.6.0
  • aroma.core 3.2.0
  • aroma.light 3.16.0
  • ATACseqQC 1.10.1
  • ballgown 2.18.0
  • batchelor 1.2.4
  • baySeq 2.20.0
  • beachmat 2.2.1
  • Biobase 2.46.0
  • BiocFileCache 1.10.2
  • BiocGenerics 0.32.0
  • BiocManager 1.30.10
  • BiocNeighbors 1.4.1
  • BiocParallel 1.20.1
  • BiocSingular 1.2.1
  • BiocVersion 3.10.1
  • biomaRt 2.42.0
  • biomformat 1.14.0
  • Biostrings 2.54.0
  • biovizBase 1.34.1
  • BSgenome 1.54.0
  • BSgenome.Hsapiens.UCSC.hg19 1.4.0
  • BSgenome.Mmusculus.UCSC.mm10 1.4.0
  • bumphunter 1.28.0
  • Category 2.52.1
  • CGHbase 1.46.0
  • ChIPpeakAnno 3.20.0
  • ComplexHeatmap 2.2.0
  • cummeRbund 2.28.0
  • DeconRNASeq 1.28.0
  • DEGseq 1.40.0
  • DelayedArray 0.12.2
  • DelayedMatrixStats 1.8.0
  • derfinder 1.20.0
  • derfinderHelper 1.20.0
  • DESeq2 1.26.0
  • DNAcopy 1.60.0
  • dqrng 0.2.1
  • DropletUtils 1.6.1
  • dupRadar 1.16.0
  • DynDoc 1.64.0
  • EBImage 4.28.1
  • edgeR 3.28.0
  • ensembldb 2.10.2
  • FDb.InfiniumMethylation.hg19 2.2.0
  • fgsea 1.12.0
  • gcrma 2.58.0
  • gdsfmt 1.22.0
  • genefilter 1.68.0
  • geneLenDataBase 1.22.0
  • geneplotter 1.64.0
  • GENESIS 2.16.1
  • GENIE3 1.8.0
  • GenomeGraphs 1.46.0
  • GenomeInfoDb 1.22.0
  • GenomeInfoDbData 1.2.2
  • GenomicAlignments 1.22.1
  • GenomicFeatures 1.38.0
  • GenomicFiles 1.22.0
  • GenomicRanges 1.38.0
  • GenomicScores 1.10.0
  • genoset 1.42.0
  • GEOquery 2.54.1
  • ggbio 1.34.0
  • Glimma 1.14.0
  • GlobalAncova 4.4.0
  • globaltest 5.40.0
  • GO.db 3.10.0
  • goseq 1.38.0
  • GOstats 2.52.0
  • graph 1.64.0
  • GSEABase 1.48.0
  • gsmoothr 0.1.7
  • GSVA 1.34.0
  • Gviz 1.30.0
  • GWASExactHW 1.01
  • GWASTools 1.32.0
  • HDF5Array 1.14.1
  • hgu133plus2.db 3.2.3
  • Homo.sapiens 1.3.1
  • IHW 1.14.0
  • illuminaio 0.28.0
  • impute 1.60.0
  • interactiveDisplayBase 1.24.0
  • IRanges 2.20.1
  • KEGG.db 3.2.3
  • KEGGgraph 1.46.0
  • KEGGprofile 1.28.0
  • KEGGREST 1.26.1
  • limma 3.42.0
  • lpsymphony 1.14.0
  • lumi 2.38.0
  • marray 1.64.0
  • maSigPro 1.58.0
  • MassSpecWavelet 1.52.0
  • metagenomeSeq 1.28.0
  • metap 1.2
  • methylumi 2.32.0
  • Mfuzz 2.46.0
  • minfi 1.32.0
  • mixOmics 6.10.6
  • MLInterfaces 1.66.2
  • MotifDb 1.28.0
  • motifStack 1.30.0
  • MotIV 1.42.0
  • multtest 2.42.0
  • mutoss-0.1-12
  • mzID 1.24.0
  • ncdf4 1.17
  • NOISeq 2.30.0
  • oligoClasses 1.48.0
  • org.Hs.eg.db 3.10.0
  • OrganismDbi 1.28.0
  • pcaMethods 1.78.0
  • perm-1.0-0.0
  • PFAM.db 3.10.0
  • phyloseq 1.30.0
  • polyester 1.22.0
  • preprocessCore 1.48.0
  • ProtGenerics 1.18.0
  • PSCBS 0.65.0
  • PureCN 1.16.0
  • quantsmooth 1.52.0
  • qvalue 2.18.0
  • R.devices 2.16.1
  • R.filesets 2.13.0
  • R.huge 0.9.0
  • rappdirs 0.3.1
  • rARPACK-0.11-0
  • RBGL 1.62.1
  • RcppAnnoy 0.0.14
  • RcppHNSW 0.2.0
  • RcppParallel 4.4.4
  • regioneR 1.18.0
  • Repitools 1.32.0
  • ReportingTools 2.26.0
  • rGADEM 2.34.1
  • Rgraphviz 2.30.0
  • rhdf5 2.30.1
  • Rhdf5lib 1.8.0
  • Rhtslib 1.18.0
  • Ringo 1.50.0
  • RNASeqPower 1.26.0
  • Rsamtools 2.2.1
  • Rsolnp 1.16
  • RSpectra-0.16-0
  • Rsubread 2.0.0
  • rsvd 1.0.2
  • rtracklayer 1.46.0
  • S4Vectors 0.24.1
  • samr 3.0
  • SC3 1.14.0
  • scater 1.14.6
  • scran 1.14.5
  • scrime 1.3.5
  • SeqArray 1.26.2
  • seqLogo 1.52.0
  • SeqVarTools 1.24.0
  • shinyFiles 0.7.5
  • ShortRead 1.44.1
  • sigaR 1.34.0
  • siggenes 1.60.0
  • SingleCellExperiment 1.8.0
  • sitmo 2.0.1
  • SNPRelate 1.20.1
  • SPIA 2.38.0
  • SSPA 2.26.0
  • SummarizedExperiment 1.16.1
  • sva 3.34.0
  • tkWidgets 1.64.0
  • truncnorm-1.0-8
  • TxDb.Hsapiens.UCSC.hg19.knownGene 3.2.2
  • TxDb.Mmusculus.UCSC.mm10.knownGene 3.10.0
  • tximport 1.14.0
  • VariantAnnotation 1.32.0
  • venn 1.8
  • vsn 3.54.0
  • widgetTools 1.64.0
  • Wrench 1.4.0
  • XVector 0.26.0
  • zlibbioc 1.32.0

More Information

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

Dependencies

This version of R-bundle-Bioconductor has a direct dependency on: fosscuda/2019b HDF5/1.10.5-gompic-2019b MariaDB-connector-c/2.3.7-GCCcore-8.3.0 ncdf4/1.16.1-fosscuda-2019b-R-3.6.2 R/3.6.2-fosscuda-2019b

Required By

This version of R-bundle-Bioconductor is a direct dependent of: BEAR-R-bio/2019b-fosscuda-2019b-R-3.6.2-ppc64le BEAR-R-bio/2019b-fosscuda-2019b-R-3.6.2 cellassign/520de59-fosscuda-2019b-Python-3.7.4-R-3.6.2

Other Versions

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

Last modified on 13th January 2020