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Classes for high-throughput arrays supported by oligo and crlmm

Bioconductor version: Release (3.2)

This package contains class definitions, validity checks, and initialization methods for classes used by the oligo and crlmm packages.

Author: Benilton Carvalho and Robert Scharpf

Maintainer: Benilton Carvalho <beniltoncarvalho at> and Robert Scharpf <rscharpf at>

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


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biocViews Infrastructure, Software
Version 1.32.0
In Bioconductor since BioC 2.1 (R-2.6) (8 years)
License GPL (>= 2)
Depends R (>= 2.14)
Imports BiocGenerics(>= 0.3.2), Biobase(>= 2.17.8), methods, graphics, IRanges(>= 2.1.10), GenomicRanges(>= 1.19.6), SummarizedExperiment, Biostrings(>= 2.23.6), affyio(>= 1.23.2), ff, foreach, BiocInstaller, utils, S4Vectors, RSQLite
Suggests hapmapsnp5, hapmapsnp6, pd.genomewidesnp.6, pd.genomewidesnp.5, pd.mapping50k.hind240, pd.mapping50k.xba240, pd.mapping250k.sty, pd.mapping250k.nsp, genomewidesnp6Crlmm(>= 1.0.7), genomewidesnp5Crlmm(>= 1.0.6), RUnit, human370v1cCrlmm, SNPchip, VanillaICE, crlmm
Enhances doMC, doMPI, doSNOW, doParallel, doRedis
Depends On Me cn.farms, crlmm, mBPCR, oligo, pd.081229.hg18.promoter.medip.hx1, pd.2006.07.18.hg18.refseq.promoter, pd.2006.07.18.mm8.refseq.promoter, pd.2006.10.31.rn34.refseq.promoter,,,, pd.atdschip.tiling, pd.ath1.121501, pd.barley1,,, pd.bovine, pd.bsubtilis,,, pd.canine, pd.canine.2, pd.celegans, pd.charm.hg18.example, pd.chicken,,,,, pd.citrus, pd.cotton,,,,, pd.cytogenetics.array,,, pd.drosgenome1, pd.drosophila.2, pd.e.coli.2, pd.ecoli, pd.ecoli.asv2,,,,,,,,,,, pd.genomewidesnp.5, pd.genomewidesnp.6,,, pd.hc.g110, pd.hg.focus,, 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.hg18.60mer.expr,,,, pd.hta.2.0, pd.hu6800,,,,,, pd.maize, pd.mapping250k.nsp, pd.mapping250k.sty, pd.mapping50k.hind240, pd.mapping50k.xba240,,,,, pd.medicago,,,,,,, pd.mirna.1.0, pd.mirna.2.0, pd.mirna.3.0, pd.mirna.3.1, pd.mirna.4.0, pd.moe430a, pd.moe430b,,,,,, pd.mouse430.2, pd.mouse430a.2, pd.mta.1.0, pd.mu11ksuba, pd.mu11ksubb, pd.nugo.hs1a520180, pd.nugo.mm1a520177,,, pd.pae.g1a, pd.plasmodium.anopheles, pd.poplar, pd.porcine,,,,, pd.rae230a, pd.rae230b,,,,,, pd.rat230.2,,, pd.rg.u34a, pd.rg.u34b, pd.rg.u34c,,, pd.rhesus, pd.rice,,, pd.rn.u34, pd.rta.1.0,,, pd.s.aureus, pd.soybean,,, 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.zebrafish, puma, waveTiling
Imports Me affycoretools, ArrayTV, charm, CNPBayes, frma, ITALICS, MinimumDistance, pdInfoBuilder, puma, SNPchip, VanillaICE
Suggests Me BiocGenerics, hapmapsnp6
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