BiocParallel

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see BiocParallel.

Bioconductor facilities for parallel evaluation

Bioconductor version: 3.14

This package provides modified versions and novel implementation of functions for parallel evaluation, tailored to use with Bioconductor objects.

Author: Bioconductor Package Maintainer [cre], Martin Morgan [aut], Jiefei Wang [aut], Valerie Obenchain [aut], Michel Lang [aut], Ryan Thompson [aut], Nitesh Turaga [aut], Aaron Lun [ctb], Henrik Bengtsson [ctb]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Citation (from within R, enter citation("BiocParallel")):

Installation

To install this package, start R (version "4.1") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("BiocParallel")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("BiocParallel")

1. Introduction to BiocParallel PDF R Script

2. Introduction to BatchtoolsParam PDF R Script

3. Errors, Logs and Debugging PDF R Script

4. Random Numbers in BiocParallel PDF R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Infrastructure, Software

Version 1.28.3

In Bioconductor since BioC 2.13 (R-3.0) (10.5 years)

License GPL-2 | GPL-3

Depends methods, R (>= 3.5.0)

Imports stats, utils, futile.logger, parallel, snow

System Requirements C++11

URL https://github.com/Bioconductor/BiocParallel

Bug Reports https://github.com/Bioconductor/BiocParallel/issues

Suggests BiocGenerics, tools, foreach, BatchJobs, BBmisc, doParallel, Rmpi, GenomicRanges, RNAseqData.HNRNPC.bam.chr14, TxDb.Hsapiens.UCSC.hg19.knownGene, VariantAnnotation, Rsamtools, GenomicAlignments, ShortRead, codetools, RUnit, BiocStyle, knitr, batchtools, data.table

Linking To BH

Enhances

Depends On Me bacon, BEclear, Cardinal, ClassifyR, clusterSeq, consensusSeekeR, CopywriteR, deco, DEWSeq, DEXSeq, DMCFB, DMCHMM, doppelgangR, DSS, FEAST, FRASER, GenomicFiles, hiReadsProcessor, INSPEcT, iPath, matter, MBASED, metagene, metagene2, metapone, ncGTW, Oscope, OUTRIDER, PCAN, periodicDNA, pRoloc, Rqc, sequencing, ShortRead, SigCheck, Spectra, STROMA4, SummarizedBenchmark, sva, variancePartition, xcms

Imports Me abseqR, ADImpute, AffiXcan, ALDEx2, AlphaBeta, ALPS, AlpsNMR, amplican, ASICS, ASpediaFI, atena, atSNP, bambu, BANDITS, BASiCS, batchelor, bayNorm, benchdamic, BiocNeighbors, BioCor, BiocSingular, BioMM, BioNERO, BioNetStat, biotmle, biscuiteer, bluster, brendaDb, bsseq, CAGEfightR, CAGEr, cellbaseR, CellBench, CelliD, CellMixS, censcyt, Cepo, ChIPexoQual, ChIPQC, ChromSCape, chromswitch, chromVAR, CNVRanger, CoGAPS, condiments, consensusDE, contiBAIT, CoreGx, coseq, cpvSNP, CrispRVariants, csaw, cydar, CytoGLMM, cytoKernel, cytomapper, dasper, dcGSA, debCAM, DEComplexDisease, derfinder, DEScan2, DESeq2, DEsingle, DiffBind, Dino, dmrseq, DOSE, DRIMSeq, DropletUtils, Dune, easier, easyRNASeq, EMDomics, enhancerHomologSearch, erma, ERSSA, escape, exomePeak2, ExpHunterSuite, fgsea, FindIT2, FindMyFriends, flowcatchR, flowSpecs, GDCRNATools, GENESIS, GenoGAM, GenomicAlignments, genotypeeval, gmapR, gscreend, GSEABenchmarkeR, GSVA, GUIDEseq, h5vc, HiCBricks, HiCcompare, HTSeqGenie, HTSFilter, iasva, icetea, ideal, IHWpaper, IMAS, imcRtools, InPAS, IntEREst, IONiseR, IPO, ISAnalytics, IVAS, KinSwingR, LineagePulse, lisaClust, loci2path, LowMACA, LRcell, MACPET, mbkmeans, MCbiclust, metabomxtr, metaseqR2, MethCP, MethylAid, methylGSA, methylInheritance, methylscaper, MetNet, mia, miaViz, MIGSA, miloR, minfi, mixOmics, MMAPPR2, MOGAMUN, monaLisa, motifbreakR, MPRAnalyze, MsBackendMassbank, MsBackendMgf, MsBackendRawFileReader, MSnbase, msqrob2, MSstatsSampleSize, multiHiCcompare, mumosa, muscat, NBAMSeq, NBSplice, NPARC, NxtIRFcore, OmicsLonDA, ORFik, OVESEG, PAIRADISE, PCAtools, PDATK, pengls, PharmacoGx, pipeComp, pram, PrecisionTrialDrawer, proActiv, proFIA, profileplyr, ProteoDisco, qpgraph, qsea, QuasR, RadioGx, Rcwl, recount, RegEnrich, REMP, RiboCrypt, RJMCMCNucleosomes, RNAmodR, Rsamtools, RUVcorr, satuRn, scanMiR, scanMiRApp, scater, scClassify, scDblFinder, scDD, scde, SCFA, scHOT, scMerge, SCnorm, scone, scoreInvHap, scPCA, scran, scRecover, scruff, scShapes, scTHI, scuttle, sesame, SEtools, sigFeature, signatureSearch, singleCellTK, SingleR, singscore, SNPhood, soGGi, sparrow, SpectralTAD, spicyR, splatter, SplicingGraphs, srnadiff, TAPseq, TarSeqQC, TBSignatureProfiler, ternarynet, TFBSTools, TMixClust, ToxicoGx, TPP2D, tradeSeq, TraRe, TreeSummarizedExperiment, Trendy, TSRchitect, TVTB, txcutr, VariantFiltering, VariantTools, velociraptor, waddR, weitrix, zinbwave

Links To Me

Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package BiocParallel_1.28.3.tar.gz

Windows Binary BiocParallel_1.28.3.zip (32- & 64-bit)

macOS 10.13 (High Sierra) BiocParallel_1.28.3.tgz

Source Repository git clone https://git.bioconductor.org/packages/BiocParallel

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BiocParallel

Bioc Package Browser https://code.bioconductor.org/browse/BiocParallel/

Package Short Url https://bioconductor.org/packages/BiocParallel/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.14 Source Archive