S4Vectors
S4 implementation of vectors and lists
Bioconductor version: 3.0
The S4Vectors package defines the Vector and List virtual classes and a set of generic functions that extend the semantic of ordinary vectors and lists in R. Package developers can easily implement vector-like or list-like objects as concrete subclasses of Vector or List. In addition, a few low-level concrete subclasses of general interest (e.g. DataFrame, Rle, and Hits) are implemented in the S4Vectors package itself (many more are implemented in the IRanges package and in other Bioconductor infrastructure packages).
Author: H. Pages, M. Lawrence and P. Aboyoun
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
Citation (from within R,
enter citation("S4Vectors")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("S4Vectors")
Documentation
Details
| biocViews |
DataRepresentation, Infrastructure, Software |
| Version |
0.4.0 |
| In Bioconductor since |
BioC 3.0 (R-3.1) |
| License |
Artistic-2.0 |
| Depends |
R (>= 3.1.0), methods, utils, stats, stats4, BiocGenerics(>= 0.11.3) |
| Imports |
methods, utils, stats, stats4, BiocGenerics |
| LinkingTo |
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| Suggests |
IRanges, RUnit |
| SystemRequirements |
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| Enhances |
|
| URL |
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| Depends On Me |
AnnotationHub, Biostrings, BiSeq, BSgenome, bumphunter, CexoR, chipseq, ChIPseqR, CSAR, DESeq2, DirichletMultinomial, DNaseR, GenomeInfoDb, GenomicAlignments, GenomicFeatures, GenomicRanges, girafe, groHMM, Gviz, IRanges, meshr, methyAnalysis, MotifDb, OTUbase, pd.ag, pd.aragene.1.0.st, pd.aragene.1.1.st, pd.ath1.121501, pd.barley1, pd.bovgene.1.0.st, pd.bovgene.1.1.st, pd.bovine, pd.bsubtilis, pd.cangene.1.0.st, pd.cangene.1.1.st, pd.canine, pd.canine.2, pd.celegans, pd.chicken, pd.chigene.1.0.st, pd.chigene.1.1.st, pd.chogene.2.0.st, pd.chogene.2.1.st, pd.citrus, pd.cotton, pd.cyngene.1.0.st, pd.cyngene.1.1.st, pd.cyrgene.1.0.st, pd.cyrgene.1.1.st, pd.cytogenetics.array, pd.drogene.1.0.st, pd.drogene.1.1.st, pd.drosgenome1, pd.drosophila.2, pd.e.coli.2, pd.ecoli, pd.ecoli.asv2, pd.elegene.1.0.st, pd.elegene.1.1.st, pd.equgene.1.0.st, pd.equgene.1.1.st, pd.felgene.1.0.st, pd.felgene.1.1.st, pd.fingene.1.0.st, pd.fingene.1.1.st, pd.genomewidesnp.5, pd.genomewidesnp.6, pd.guigene.1.0.st, pd.guigene.1.1.st, pd.hc.g110, pd.hg.focus, pd.hg.u133.plus.2, pd.hg.u133a, pd.hg.u133a.2, pd.hg.u133a.tag, pd.hg.u133b, pd.hg.u219, pd.hg.u95a, pd.hg.u95av2, pd.hg.u95b, pd.hg.u95c, pd.hg.u95d, pd.hg.u95e, pd.ht.hg.u133.plus.pm, pd.ht.hg.u133a, pd.ht.mg.430a, pd.hta.2.0, pd.hu6800, pd.huex.1.0.st.v2, pd.hugene.1.0.st.v1, pd.hugene.1.1.st.v1, pd.hugene.2.0.st, pd.hugene.2.1.st, pd.maize, pd.mapping250k.nsp, pd.mapping250k.sty, pd.mapping50k.hind240, pd.mapping50k.xba240, pd.margene.1.0.st, pd.margene.1.1.st, pd.medgene.1.0.st, pd.medgene.1.1.st, pd.medicago, pd.mg.u74a, pd.mg.u74av2, pd.mg.u74b, pd.mg.u74bv2, pd.mg.u74c, pd.mg.u74cv2, pd.mirna.1.0, pd.mirna.2.0, pd.mirna.3.0, pd.mirna.4.0, pd.moe430a, pd.moe430b, pd.moex.1.0.st.v1, pd.mogene.1.0.st.v1, pd.mogene.1.1.st.v1, pd.mogene.2.1.st, pd.mouse430.2, pd.mouse430a.2, pd.mu11ksuba, pd.mu11ksubb, pd.nugo.hs1a520180, pd.nugo.mm1a520177, pd.ovigene.1.0.st, pd.ovigene.1.1.st, pd.pae.g1a, pd.plasmodium.anopheles, pd.poplar, pd.porcine, pd.porgene.1.0.st, pd.porgene.1.1.st, pd.rabgene.1.0.st, pd.rabgene.1.1.st, pd.rae230a, pd.rae230b, pd.raex.1.0.st.v1, pd.ragene.1.0.st.v1, pd.ragene.1.1.st.v1, pd.ragene.2.0.st, pd.ragene.2.1.st, pd.rat230.2, pd.rcngene.1.0.st, pd.rcngene.1.1.st, pd.rg.u34a, pd.rg.u34b, pd.rg.u34c, pd.rhegene.1.0.st, pd.rhegene.1.1.st, pd.rhesus, pd.rice, pd.rjpgene.1.0.st, pd.rjpgene.1.1.st, pd.rn.u34, pd.rusgene.1.0.st, pd.rusgene.1.1.st, pd.s.aureus, pd.soybean, pd.soygene.1.0.st, pd.soygene.1.1.st, pd.sugar.cane, pd.tomato, pd.u133.x3p, pd.vitis.vinifera, pd.wheat, pd.x.laevis.2, pd.x.tropicalis, pd.xenopus.laevis, pd.yeast.2, pd.yg.s98, pd.zebgene.1.0.st, pd.zebgene.1.1.st, pd.zebrafish, plethy, Rsamtools, segmentSeq, SNPlocs.Hsapiens.dbSNP141.GRCh38, SplicingGraphs, triplex, VariantTools, XVector |
| Imports Me |
AllelicImbalance, AnnotationDbi, AnnotationForge, ballgown, biovizBase, BiSeq, BitSeq, BSgenome, casper, cgdv17, ChIPQC, ChIPseeker, CNEr, compEpiTools, copynumber, CoverageView, csaw, DECIPHER, derfinder, derfinderHelper, DiffBind, easyRNASeq, epivizr, GenomeInfoDb, GenomicAlignments, GenomicTuples, genoset, ggbio, GGtools, gmapR, GOTHiC, gwascat, h5vc, kebabs, methylPipe, methylumi, minfi, MinimumDistance, mygene, NarrowPeaks, nucleR, oligoClasses, Pbase, pd.atdschip.tiling, pdInfoBuilder, polyester, qcmetrics, qpgraph, QuasR, Rariant, Rcade, Repitools, roar, Rqc, rtracklayer, SeqArray, seqplots, SGSeq, ShortRead, SNPlocs.Hsapiens.dbSNP141.GRCh38, SomaticSignatures, TFBSTools, TSSi, VanillaICE, VariantAnnotation, VariantFiltering, XVector |
| Suggests Me |
BiocGenerics |
| Build Report |
|
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