Package: a4
Version: 1.6.1
Depends: a4Base, a4Preproc, a4Classif, a4Core, a4Reporting
Suggests: MLP, nlcv, ALL, Cairo
License: GPL-3

Package: a4Base
Version: 1.6.0
Depends: methods, graphics, grid, Biobase, AnnotationDbi, annaffy, mpm,
        genefilter, limma, multtest, glmnet, a4Preproc, a4Core, gplots
Suggests: Cairo, ALL
Enhances: gridSVG, JavaGD
License: GPL-3

Package: a4Classif
Version: 1.6.0
Depends: methods, a4Core, a4Preproc, MLInterfaces, ROCR, pamr, glmnet,
        varSelRF
Imports: a4Core
Suggests: ALL
License: GPL-3

Package: a4Core
Version: 1.6.0
Depends: methods, Biobase, glmnet
License: GPL-3

Package: a4Preproc
Version: 1.6.0
Depends: methods, AnnotationDbi
Suggests: ALL, hgu95av2.db
License: GPL-3

Package: a4Reporting
Version: 1.6.0
Depends: methods, annaffy
Imports: xtable, utils
License: GPL-3

Package: ABarray
Version: 1.26.0
Imports: Biobase, graphics, grDevices, methods, multtest, stats, tcltk,
        utils
Suggests: limma, LPE
License: GPL

Package: aCGH
Version: 1.36.0
Depends: R (>= 2.10), cluster, survival, multtest
Imports: Biobase, cluster, grDevices, graphics, methods, multtest,
        stats, survival, splines, utils
License: GPL-2
Archs: i386, x64

Package: ACME
Version: 2.14.0
Depends: R (>= 2.10), Biobase (>= 2.5.5), methods
Imports: graphics, stats
License: GPL (>= 2)
Archs: i386, x64

Package: ADaCGH2
Version: 1.8.0
Depends: R (>= 2.11.0), tilingArray, aCGH, waveslim, cluster, snapCGH,
        snowfall, ff
Suggests: GLAD, DNAcopy, CGHregions, rlecuyer
Enhances: Rmpi, multicore
License: GPL (>= 3)
Archs: i386, x64

Package: adSplit
Version: 1.28.0
Depends: R (>= 2.1.0), methods (>= 2.1.0)
Imports: AnnotationDbi, Biobase (>= 1.5.12), cluster (>= 1.9.1), GO.db
        (>= 1.8.1), graphics, grDevices, KEGG.db (>= 1.8.1), methods,
        multtest (>= 1.6.0), stats (>= 2.1.0)
Suggests: golubEsets (>= 1.0), vsn (>= 1.5.0), hu6800.db (>= 1.8.1)
License: GPL (>= 2)
Archs: i386, x64

Package: affxparser
Version: 1.30.2
Depends: R (>= 2.6.0)
Suggests: R.utils (>= 1.19.3), AffymetrixDataTestFiles
License: LGPL (>= 2)
Archs: i386, x64

Package: affy
Version: 1.36.1
Depends: R (>= 2.8.0), BiocGenerics (>= 0.1.12), Biobase (>= 2.5.5)
Imports: BiocGenerics, Biobase, affyio (>= 1.13.3), BiocInstaller,
        graphics, grDevices, methods, preprocessCore, stats, utils,
        zlibbioc
LinkingTo: preprocessCore
Suggests: tkWidgets (>= 1.19.0), affydata, widgetTools
License: LGPL (>= 2.0)
Archs: i386, x64

Package: affycomp
Version: 1.34.0
Depends: R (>= 2.13.0), methods, Biobase (>= 2.3.3)
Suggests: splines, affycompData
License: GPL (>= 2)

Package: AffyCompatible
Version: 1.18.2
Depends: R (>= 2.7.0), XML (>= 2.8-1), RCurl (>= 0.8-1), methods
Imports: Biostrings
License: Artistic-2.0

Package: affyContam
Version: 1.16.0
Depends: R (>= 2.7.0), tools, methods, utils, Biobase, affy, affydata
License: Artistic-2.0

Package: affycoretools
Version: 1.30.0
Depends: affy, Biobase, GO.db, KEGG.db
Imports: biomaRt, limma, GOstats, annotate, annaffy, genefilter, gcrma,
        splines, xtable, AnnotationDbi, lattice, gplots
Suggests: affydata, hgfocuscdf, rgl
License: Artistic-2.0

Package: AffyExpress
Version: 1.24.0
Depends: R (>= 2.10), affy (>= 1.23.4), limma
Suggests: simpleaffy, R2HTML, affyPLM, hgu95av2cdf, hgu95av2, test3cdf,
        genefilter, estrogen, annaffy, gcrma
License: LGPL

Package: affyILM
Version: 1.10.0
Depends: R (>= 2.10.0), methods, gcrma
Imports: affxparser (>= 1.16.0), affy, graphics, methods, Biobase
Suggests: AffymetrixDataTestFiles
License: GPL-3

Package: affyio
Version: 1.26.0
Depends: R (>= 2.6.0), methods
Imports: zlibbioc
License: LGPL (>= 2)
Archs: i386, x64

Package: affylmGUI
Version: 1.32.0
Depends: limma, tcltk, affy, BiocInstaller, affyio
Suggests: tkrplot, affyPLM, R2HTML, xtable
License: LGPL

Package: affyPara
Version: 1.18.0
Depends: R (>= 2.5.0), methods, affy (>= 1.20.0), snow (>= 0.2-3), vsn
        (>= 3.6.0), aplpack (>= 1.1.1)
Suggests: affydata
Enhances: affy
License: GPL-3

Package: affypdnn
Version: 1.32.0
Depends: R (>= 2.13.0), affy (>= 1.5)
Suggests: affydata, hgu95av2probe
License: LGPL

Package: affyPLM
Version: 1.34.0
Depends: R (>= 2.6.0), BiocGenerics (>= 0.3.2), affy (>= 1.11.0),
        Biobase (>= 2.17.8), gcrma, stats, preprocessCore (>= 1.5.1)
Imports: BiocGenerics, zlibbioc, graphics, grDevices, methods
LinkingTo: preprocessCore
Suggests: affydata, MASS
License: GPL (>= 2)
Archs: i386, x64

Package: affyQCReport
Version: 1.36.0
Depends: Biobase (>= 1.13.16), affy, lattice
Imports: affy, affyPLM, Biobase, genefilter, graphics, grDevices,
        lattice, RColorBrewer, simpleaffy, stats, utils, xtable
Suggests: tkWidgets (>= 1.5.23), affydata (>= 1.4.1)
License: LGPL (>= 2)

Package: AffyRNADegradation
Version: 1.4.0
Depends: R (>= 2.9.0), methods, affy
Suggests: AmpAffyExample
License: GPL-2

Package: AffyTiling
Version: 1.16.1
Depends: R (>= 2.6)
Imports: affxparser, affy (>= 1.16), stats, utils, preprocessCore
License: GPL (>= 2)
Archs: i386, x64

Package: AGDEX
Version: 1.6.0
Depends: R (>= 2.10), Biobase, GSEABase
Imports: stats
License: GPL (>= 2)

Package: Agi4x44PreProcess
Version: 1.18.0
Depends: R (>= 2.10), Biobase, limma, annotate, genefilter
Suggests: vsn, affycoretools, hgug4112a.db, GO.db, marray, gplots,
        gtools, gdata
License: GPL-3

Package: agilp
Version: 3.0.0
Depends: R (>= 2.14.0)
License: GPL-3

Package: AgiMicroRna
Version: 2.8.0
Depends: R (>= 2.10),methods,Biobase,limma,affy (>=
        1.22),preprocessCore,affycoretools
Imports: Biobase
Suggests: geneplotter,marray,gplots,gtools,gdata,codelink
License: GPL-3

Package: altcdfenvs
Version: 2.20.0
Depends: R (>= 2.7), methods, BiocGenerics (>= 0.1.0), Biobase (>=
        2.15.1), affy, makecdfenv, Biostrings, hypergraph
Suggests: plasmodiumanophelescdf, hgu95acdf, hgu133aprobe, hgu133a.db,
        hgu133acdf, Rgraphviz, RColorBrewer
License: GPL (>= 2)

Package: annaffy
Version: 1.30.0
Depends: R (>= 2.5.0), methods, Biobase, GO.db, KEGG.db
Imports: AnnotationDbi (>= 0.1.15)
Suggests: hgu95av2.db, multtest, tcltk
License: LGPL

Package: annotate
Version: 1.36.0
Depends: R (>= 2.10), AnnotationDbi (>= 0.1.15)
Imports: Biobase, AnnotationDbi, DBI, xtable, graphics, utils, stats,
        methods, XML (>= 0.92-2), BiocGenerics (>= 0.1.13)
Suggests: Biobase, hgu95av2.db, genefilter, Biostrings (>= 2.25.10),
        rae230a.db, rae230aprobe, tkWidgets, GO.db, org.Hs.eg.db, XML
        (>= 0.92-2), org.Mm.eg.db, hom.Hs.inp.db, humanCHRLOC,
        Rgraphviz, RUnit,
License: Artistic-2.0

Package: AnnotationDbi
Version: 1.20.7
Depends: R (>= 2.7.0), methods, utils, BiocGenerics (>= 0.1.13),
        Biobase (>= 1.17.0)
Imports: methods, utils, DBI, RSQLite, BiocGenerics, Biobase, IRanges
Suggests: DBI (>= 0.2-4), RSQLite (>= 0.6-4), hgu95av2.db, GO.db,
        org.Sc.sgd.db, org.At.tair.db, KEGG.db, RUnit,
        TxDb.Hsapiens.UCSC.hg19.knownGene, hom.Hs.inp.db, org.Hs.eg.db,
        seqnames.db, reactome.db, AnnotationForge
License: Artistic-2.0

Package: AnnotationForge
Version: 1.0.3
Depends: R (>= 2.7.0), methods, utils, BiocGenerics (>= 0.1.13),
        Biobase (>= 1.17.0), AnnotationDbi (>= 1.19.15), org.Hs.eg.db
Imports: methods, utils, DBI, RSQLite, BiocGenerics, Biobase
Suggests: DBI (>= 0.2-4), RSQLite (>= 0.6-4), XML, RCurl, hgu95av2.db,
        human.db0, affy, Homo.sapiens, hom.Hs.inp.db, GO.db
License: Artistic-2.0

Package: AnnotationFuncs
Version: 1.8.0
Depends: R (>= 2.7.0), AnnotationDbi
Suggests: org.Bt.eg.db, GO.db, org.Hs.eg.db, hom.Hs.inp.db
License: GPL-2

Package: annotationTools
Version: 1.32.0
Imports: Biobase, stats
License: GPL

Package: anota
Version: 1.6.0
Depends: qvalue
Imports: multtest, qvalue
License: GPL-3

Package: apComplex
Version: 2.24.0
Depends: R (>= 2.10), graph, RBGL
Imports: Rgraphviz, stats, org.Sc.sgd.db
License: LGPL

Package: aroma.light
Version: 1.28.0
Depends: R (>= 2.10.0), matrixStats (>= 0.5.3)
Imports: R.methodsS3 (>= 1.4.2)
Suggests: R.oo (>= 1.9.9), R.utils (>= 1.16.2), princurve (>= 1.1-11)
License: GPL (>= 2)

Package: ArrayExpress
Version: 1.18.0
Depends: R (>= 2.9.0), Biobase (>= 2.4.0)
Imports: XML, affy, limma
License: Artistic-2.0

Package: arrayMvout
Version: 1.16.0
Depends: R (>= 2.6.0), tools, methods, utils, parody, Biobase, affy,
        lumi
Imports: simpleaffy, mdqc, affyContam,
Suggests: MAQCsubset, mvoutData, lumiBarnes, affyPLM, affydata,
        hgu133atagcdf
License: Artistic-2.0

Package: arrayQuality
Version: 1.36.0
Depends: R (>= 2.2.0)
Imports: graphics, grDevices, grid, gridBase, hexbin, limma, marray,
        methods, RColorBrewer, stats, utils
Suggests: mclust, MEEBOdata, HEEBOdata
License: LGPL

Package: arrayQualityMetrics
Version: 3.14.0
Imports: affy, affyPLM (>= 1.27.3), beadarray, Biobase, Cairo (>=
        1.4-6), genefilter, graphics, grDevices, grid, Hmisc, hwriter,
        lattice, latticeExtra, limma, methods, RColorBrewer, setRNG,
        simpleaffy, stats, SVGAnnotation (>= 0.9-0), utils, vsn (>=
        3.23.3), XML
Suggests: ALLMLL, CCl4
License: LGPL (>= 2)

Package: ArrayTools
Version: 1.18.0
Depends: R (>= 2.7.0), affy (>= 1.23.4), Biobase (>= 2.5.5), methods
Imports: affy, Biobase, graphics, grDevices, limma, methods, stats,
        utils, xtable
Suggests: simpleaffy, R2HTML, affydata, affyPLM, genefilter, annaffy,
        gcrma, hugene10sttranscriptcluster.db
License: LGPL (>= 2.0)

Package: ASEB
Version: 1.2.0
Depends: R (>= 2.8.0), methods
Imports: graphics, methods, utils
License: GPL (>= 3)
Archs: i386, x64

Package: attract
Version: 1.10.0
Depends: R (>= 2.10.0), AnnotationDbi, KEGG.db, limma, cluster,
        GOstats, graphics, methods, stats
Imports: Biobase, AnnotationDbi, KEGG.db, limma, cluster, GOstats,
        graphics, methods, stats
Suggests: illuminaHumanv1.db
License: LGPL (>= 2.0)

Package: BAC
Version: 1.18.0
Depends: R (>= 2.10)
License: Artistic-2.0
Archs: i386, x64

Package: BayesPeak
Version: 1.10.0
Depends: R (>= 2.14), IRanges
Imports: IRanges, graphics
License: GPL (>= 2)
Archs: i386, x64

Package: baySeq
Version: 1.12.0
Depends: R (>= 2.3.0), methods
Suggests: snow, edgeR
License: GPL-3

Package: BCRANK
Version: 1.20.0
Depends: methods
Imports: Biostrings
Suggests: seqLogo
License: GPL-2
Archs: i386, x64

Package: beadarray
Version: 2.8.1
Depends: R (>= 2.13.0), BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
        methods, ggplot2
Imports: BeadDataPackR, limma, AnnotationDbi, stats4, BiocGenerics,
        reshape2
Suggests: lumi, vsn, affy, hwriter, beadarrayExampleData,
        illuminaHumanv3.db, gridExtra
License: GPL-2
Archs: i386, x64

Package: beadarraySNP
Version: 1.24.0
Depends: methods, Biobase (>= 2.5.5), quantsmooth
Suggests: aCGH, affy, limma, snapCGH, beadarray, DNAcopy
License: GPL-2

Package: BeadDataPackR
Version: 1.10.0
License: GPL-2
Archs: i386, x64

Package: betr
Version: 1.14.0
Depends: R(>= 2.6.0)
Imports: Biobase (>= 2.5.5), limma, mvtnorm, methods, stats
Suggests: Biobase
License: LGPL

Package: bgafun
Version: 1.20.0
Depends: made4, seqinr,ade4
License: Artistic-2.0

Package: bgx
Version: 1.22.0
Depends: R (>= 2.0.1), Biobase, affy (>= 1.5.0), gcrma (>= 2.4.1)
Suggests: affydata, hgu95av2cdf
License: GPL-2
Archs: i386, x64

Package: BHC
Version: 1.10.0
License: GPL-3
Archs: i386, x64

Package: BicARE
Version: 1.16.0
Depends: R (>= 1.8.0), Biobase (>= 2.5.5), multtest, GSEABase
License: GPL-2
Archs: i386, x64

Package: Biobase
Version: 2.18.0
Depends: R (>= 2.10), BiocGenerics (>= 0.3.2), utils
Imports: methods, BiocGenerics
Suggests: tools, tkWidgets, ALL
License: Artistic-2.0
Archs: i386, x64

Package: BiocCaseStudies
Version: 1.20.0
Depends: tools, methods, utils, Biobase
Suggests: affy (>= 1.17.3), affyPLM (>= 1.15.1), affyQCReport (>=
        1.17.0), ALL (>= 1.4.3), annaffy (>= 1.11.1), annotate (>=
        1.17.3), AnnotationDbi (>= 1.1.6), apComplex (>= 2.5.0),
        Biobase (>= 1.17.5), bioDist (>= 1.11.3), biocGraph (>= 1.1.1),
        biomaRt (>= 1.13.5), CCl4 (>= 1.0.6), CLL (>= 1.2.4), Category
        (>= 2.5.0), class (>= 7.2-38), cluster (>= 1.11.9), convert (>=
        1.15.0), gcrma (>= 2.11.1), genefilter (>= 1.17.6), geneplotter
        (>= 1.17.2), GO.db (>= 2.0.2), GOstats (>= 2.5.0), graph (>=
        1.17.4), GSEABase (>= 1.1.13), hgu133a.db (>= 2.0.2),
        hgu95av2.db, hgu95av2cdf (>= 2.0.0), hgu95av2probe (>= 2.0.0),
        hopach (>= 1.13.0), KEGG.db (>= 2.0.2), kohonen (>= 2.0.2),
        lattice (>= 0.17.2), latticeExtra (>= 0.3-1), limma (>=
        2.13.1), MASS (>= 7.2-38), MLInterfaces (>= 1.13.17), multtest
        (>= 1.19.0), org.Hs.eg.db (>= 2.0.2), ppiStats (>= 1.5.4),
        randomForest (>= 4.5-20), RBGL (>= 1.15.6), RColorBrewer (>=
        1.0-2), Rgraphviz (>= 1.17.11), vsn (>= 3.4.0), weaver (>=
        1.5.0), xtable (>= 1.5-2), yeastExpData (>= 0.9.11)
License: Artistic-2.0

Package: BiocGenerics
Version: 0.4.0
Depends: methods, graphics, stats
Imports: methods, graphics, stats
Suggests: Biobase, IRanges, GenomicRanges, AnnotationDbi, oligoClasses,
        oligo, affyPLM, RUnit
License: Artistic-2.0

Package: biocGraph
Version: 1.20.0
Depends: Rgraphviz, graph
Imports: Rgraphviz, geneplotter, graph, BiocGenerics, methods
Suggests: fibroEset, geneplotter, hgu95av2.db
License: Artistic-2.0

Package: BiocInstaller
Version: 1.8.3
Depends: R (>= 2.15.0)
Suggests: RUnit, BiocGenerics
License: Artistic-2.0

Package: biocViews
Version: 1.26.0
Depends: R (>= 2.4.0)
Imports: Biobase, graph (>= 1.9.26), methods, RBGL (>= 1.13.5), tools,
        utils, XML, RCurl, RUnit
Suggests: Biobase
License: Artistic-2.0

Package: bioDist
Version: 1.30.0
Depends: R (>= 2.0), methods, Biobase,KernSmooth
Suggests: locfit
License: Artistic-2.0

Package: biomaRt
Version: 2.14.0
Depends: methods
Imports: utils, XML, RCurl
Suggests: annotate
License: Artistic-2.0

Package: BioMVCClass
Version: 1.26.0
Depends: R (>= 2.1.0), methods, MVCClass, Biobase, graph, Rgraphviz
License: LGPL

Package: BioNet
Version: 1.16.0
Depends: R (>= 2.10.0), Biobase, graph, RBGL
Imports: igraph0, AnnotationDbi
Suggests: rgl, impute, DLBCL, genefilter, xtable, ALL, limma,
        hgu95av2.db, XML
License: GPL (>= 2)

Package: BioSeqClass
Version: 1.16.0
Depends: R (>= 2.10), scatterplot3d
Imports: Biostrings, ipred, e1071, klaR, randomForest, class, tree,
        nnet, rpart, party, foreign, Biobase, utils, stats, grDevices
Suggests: scatterplot3d
License: LGPL (>= 2.0)

Package: Biostrings
Version: 2.26.3
Depends: R (>= 2.8.0), methods, BiocGenerics (>= 0.1.2), IRanges (>=
        1.15.37)
Imports: graphics, methods, stats, utils, BiocGenerics, IRanges
LinkingTo: IRanges
Suggests: BSgenome (>= 1.13.14), BSgenome.Celegans.UCSC.ce2 (>=
        1.3.11), BSgenome.Dmelanogaster.UCSC.dm3 (>= 1.3.11),
        BSgenome.Hsapiens.UCSC.hg18, drosophila2probe, hgu95av2probe,
        hgu133aprobe, GenomicFeatures (>= 1.3.14), hgu95av2cdf, affy,
        affydata (>= 1.11.5), RUnit
Enhances: Rmpi
License: Artistic-2.0
Archs: i386, x64

Package: biovizBase
Version: 1.6.2
Depends: R (>= 2.10), methods
Imports: methods, stats, grDevices, scales, Hmisc, RColorBrewer,
        dichromat, BiocGenerics, IRanges, GenomicRanges, Biostrings,
        Rsamtools, GenomicFeatures
Suggests: BSgenome.Hsapiens.UCSC.hg19,
        TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome, rtracklayer
License: Artistic-2.0
Archs: i386, x64

Package: birta
Version: 1.2.0
Depends: limma, MASS, R(>= 2.10), Biobase, methods
License: GPL (>= 2)
Archs: i386, x64

Package: BitSeq
Version: 1.2.2
Depends: Rsamtools, zlibbioc
Imports: IRanges
LinkingTo: Rsamtools, zlibbioc
License: Artistic-2.0
Archs: i386, x64

Package: BRAIN
Version: 1.4.0
Depends: R (>= 2.8.1), PolynomF, Biostrings, lattice
License: GPL-2

Package: BrainStars
Version: 1.2.0
Depends: RCurl, Biobase, methods
Imports: RJSONIO, Biobase
License: Artistic-2.0

Package: bridge
Version: 1.22.0
Depends: R (>= 1.9.0), rama
License: GPL (>= 2)
Archs: i386, x64

Package: BSgenome
Version: 1.26.1
Depends: R (>= 2.8.0), methods, BiocGenerics (>= 0.1.2), IRanges (>=
        1.13.6), GenomicRanges (>= 1.7.5), Biostrings (>= 2.23.3)
Suggests: RUnit, BSgenome.Celegans.UCSC.ce2 (>= 1.3.11),
        BSgenome.Hsapiens.UCSC.hg19 (>= 1.3.11),
        SNPlocs.Hsapiens.dbSNP.20100427, hgu95av2probe, Biobase
License: Artistic-2.0

Package: bsseq
Version: 0.6.2
Depends: R (>= 2.15), methods, BiocGenerics, IRanges, GenomicRanges,
        parallel, matrixStats
Imports: scales, stats, graphics, Biobase, locfit
Suggests: RUnit, bsseqData
License: Artistic-2.0

Package: BufferedMatrix
Version: 1.22.0
Depends: R (>= 2.6.0), methods
License: LGPL (>= 2)
Archs: i386, x64

Package: BufferedMatrixMethods
Version: 1.22.0
Depends: R (>= 2.6.0), BufferedMatrix (>= 1.3.0), methods
LinkingTo: BufferedMatrix
Suggests: affyio, affy
License: GPL (>= 2)
Archs: i386, x64

Package: BUS
Version: 1.14.0
Depends: R (>= 2.3.0), minet
Imports: stats
License: GPL-3
Archs: i386, x64

Package: CALIB
Version: 1.24.0
Depends: R (>= 2.10), limma, methods
Imports: limma, methods, graphics, stats, utils
License: LGPL
Archs: i386, x64

Package: CAMERA
Version: 1.14.0
Depends: R (>= 2.1.0), methods, Biobase, xcms (>= 1.13.5), igraph
Imports: methods, xcms, RBGL, graph, graphics, grDevices, stats, utils,
        Hmisc, igraph
Suggests: faahKO, RUnit
Enhances: Rmpi, snow
License: GPL (>= 2)
Archs: i386, x64

Package: cancerclass
Version: 1.2.1
Depends: R (>= 2.10.1), Biobase, binom, methods, stats
Suggests: cancerdata
License: GPL-3
Archs: i386, x64

Package: CancerMutationAnalysis
Version: 1.2.1
Depends: R (>= 2.10.0), qvalue
Imports: AnnotationDbi, limma, methods, stats
Suggests: KEGG.db
License: GPL (>= 2) + file LICENSE
Archs: i386, x64

Package: Category
Version: 2.24.0
Depends: BiocGenerics (>= 0.3.2), AnnotationDbi (>= 0.1.15), Biobase
        (>= 2.17.8), methods
Imports: BiocGenerics, graph, methods, Biobase, AnnotationDbi, RBGL,
        GSEABase (>= 1.19.3), genefilter, annotate (>= 1.15.6), stats,
        utils
Suggests: EBarrays, ALL, Rgraphviz, RColorBrewer, xtable (>= 1.4-6),
        hgu95av2.db, Matrix, KEGG.db, GO.db, SNPchip (>= 2.3.11),
        geneplotter, limma, lattice, graph, Biobase, genefilter,
        methods, RUnit, org.Sc.sgd.db, GOstats
License: Artistic-2.0

Package: categoryCompare
Version: 1.2.0
Depends: R (>= 2.10), BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
        AnnotationDbi (>= 0.1.15), Category (>= 2.23.4)
Imports: BiocGenerics, Biobase, AnnotationDbi, hwriter, GSEABase,
        Category, GOstats, annotate, colorspace, graph, RCytoscape (>=
        1.5.11)
Suggests: methods, GSEABase, hwriter, colorspace, graph, GO.db,
        KEGG.db, estrogen, org.Hs.eg.db, hgu95av2.db, limma, affy,
        genefilter
License: GPL-2

Package: cellGrowth
Version: 1.2.0
Depends: R (>= 2.12.0), locfit (>= 1.5-4)
Imports: lattice
License: Artistic-2.0

Package: cellHTS
Version: 1.28.0
Depends: R (>= 2.10), prada (>= 1.9.4), RColorBrewer, Biobase (>=
        1.11.12), genefilter (>= 1.11.2)
Suggests: Category, GO.db, vsn (>= 2.0.35)
License: Artistic-2.0

Package: cellHTS2
Version: 2.22.0
Depends: R (>= 2.10), RColorBrewer, Biobase, methods, genefilter,
        splots, vsn, hwriter, locfit, grid
Imports: prada, GSEABase, Category, stats4
License: Artistic-2.0

Package: CellNOptR
Version: 1.4.0
Depends: R (>= 2.15.0), RBGL, graph, methods
Suggests: Rgraphviz,RUnit, BiocGenerics
Enhances: Rgraphviz
License: GPL-2
Archs: i386, x64

Package: CGEN
Version: 1.10.0
Depends: R (>= 2.10.1), survival, cluster
Suggests: cluster
License: GPL-2 + file LICENSE
Archs: i386, x64

Package: CGHbase
Version: 1.18.0
Depends: R (>= 2.10), methods, Biobase (>= 2.5.5), marray
License: GPL

Package: CGHcall
Version: 2.18.0
Depends: R (>= 2.0.0), impute(>= 1.8.0), DNAcopy (>= 1.6.0), methods,
        Biobase, CGHbase (>= 1.15.1), snowfall
License: GPL

Package: cghMCR
Version: 1.16.0
Depends: methods, DNAcopy, CNTools, limma
Imports: BiocGenerics (>= 0.1.6), stats4
License: LGPL

Package: CGHnormaliter
Version: 1.12.0
Depends: CGHcall (>= 2.17.0), CGHbase (>= 1.15.0)
Imports: Biobase, CGHbase, CGHcall, methods, stats, utils
License: GPL (>= 3)

Package: CGHregions
Version: 1.16.0
Depends: R (>= 2.0.0), methods, Biobase, CGHbase
License: GPL

Package: charm
Version: 2.4.0
Depends: R (>= 2.14.0), Biobase, SQN, fields, RColorBrewer, genefilter
Imports: BSgenome, Biobase, oligo (>= 1.11.31), oligoClasses(>=
        1.17.39), ff, preprocessCore, methods, stats, Biostrings,
        IRanges, siggenes, nor1mix, gtools, grDevices, graphics, utils,
        limma, parallel, sva(>= 3.1.2)
Suggests: charmData, BSgenome.Hsapiens.UCSC.hg18, corpcor
License: LGPL (>= 2)

Package: ChemmineR
Version: 2.10.9
Depends: R (>= 2.10.0), methods
Imports: graphics, methods, stats, RCurl
License: Artistic-2.0

Package: ChIPpeakAnno
Version: 2.6.1
Depends: R (>= 2.10), grid,VennDiagram, BiocGenerics (>= 0.1.0),
        biomaRt, multtest, IRanges, Biostrings, BSgenome,
        BSgenome.Ecoli.NCBI.20080805, GO.db, org.Hs.eg.db, limma
Imports: gplots, BiocGenerics, biomaRt, multtest, IRanges, Biostrings,
        BSgenome, GO.db, limma, AnnotationDbi
Suggests: reactome.db
License: GPL (>= 2)

Package: chipseq
Version: 1.8.0
Depends: R (>= 2.10), methods, BiocGenerics (>= 0.1.0), IRanges (>=
        1.13.4), GenomicRanges (>= 1.7.7), BSgenome, ShortRead
Imports: methods, BiocGenerics, IRanges, BSgenome, GenomicRanges,
        lattice, ShortRead, stats
Suggests: GenomicFeatures, BSgenome.Mmusculus.UCSC.mm9,
        TxDb.Mmusculus.UCSC.mm9.knownGene
License: Artistic-2.0
Archs: i386, x64

Package: ChIPseqR
Version: 1.12.0
Depends: R (>= 2.10.0), methods, BiocGenerics, ShortRead
Imports: Biostrings, fBasics, GenomicRanges, graphics, grDevices,
        HilbertVis, IRanges, methods, ShortRead, stats, timsac, utils
License: GPL (>= 2)
Archs: i386, x64

Package: ChIPsim
Version: 1.12.0
Depends: Biostrings
Imports: IRanges, Biostrings, ShortRead, graphics, methods, stats,
        utils
Suggests: actuar, zoo
License: GPL (>= 2)

Package: chopsticks
Version: 1.22.4
Depends: R(>= 2.10.0), survival, methods
Suggests: hexbin
License: GPL-3
Archs: i386, x64

Package: chroGPS
Version: 1.0.1
Depends: R (>= 2.13.0), IRanges, methods, Biobase, MASS, graphics,
        stats, rgl
Imports: graphics, cluster, DPpackage
Enhances: multicore
License: GPL (>= 2)

Package: ChromHeatMap
Version: 1.12.0
Depends: R (>= 2.9.0), BiocGenerics (>= 0.3.2), annotate (>= 1.20.0),
        AnnotationDbi (>= 1.4.0), hgu95av2.db
Imports: BiocGenerics, annotate, AnnotationDbi, Biobase (>= 2.17.8),
        graphics, grDevices, methods, stats, IRanges, rtracklayer
Suggests: ALL
License: Artistic-2.0

Package: clippda
Version: 1.8.0
Depends: R (>= 2.13.1),limma, statmod, rgl, lattice, scatterplot3d,
        graphics, grDevices, stats, utils, Biobase, tools, methods
License: GPL (>= 2)

Package: Clonality
Version: 1.6.0
Depends: R (>= 2.12.2), DNAcopy
Imports: DNAcopy, grDevices, graphics, stats, utils
Suggests: gdata, DNAcopy
License: GPL-3

Package: clst
Version: 1.6.0
Depends: R (>= 2.10)
Imports: ROC, lattice
Suggests: RUnit
License: GPL-3

Package: clstutils
Version: 1.6.0
Depends: R (>= 2.10), clst, rjson, ape
Imports: lattice, RSQLite
Suggests: RUnit, RSVGTipsDevice
License: GPL-3

Package: clusterProfiler
Version: 1.6.0
Depends: R (>= 2.10), ggplot2
Imports: methods, stats4, DBI, plyr, AnnotationDbi, GO.db, KEGG.db,
        org.Hs.eg.db, DOSE
Suggests: GOSemSim, ReactomePA
License: Artistic-2.0

Package: clusterStab
Version: 1.30.0
Depends: Biobase (>= 1.4.22), R (>= 1.9.0), methods
Suggests: fibroEset, genefilter
License: Artistic-2.0

Package: CMA
Version: 1.16.0
Depends: R (>= 2.10), methods, stats, Biobase
Suggests: MASS, class, nnet, glmnet, e1071, randomForest, plsgenomics,
        gbm, mgcv, corpcor, limma, st
License: GPL (>= 2)

Package: CNAnorm
Version: 1.4.0
Depends: R (>= 2.10.1), DNAcopy, methods
Imports: methods
License: GPL-2
Archs: i386, x64

Package: cn.farms
Version: 1.6.0
Depends: R (>= 2.11), Biobase, methods, ff, oligoClasses, snowfall
Imports: DBI, affxparser, oligo, DNAcopy, preprocessCore, lattice
Suggests: pd.mapping250k.sty, pd.mapping250k.nsp, pd.genomewidesnp.5,
        pd.genomewidesnp.6
License: LGPL (>= 2.0)
Archs: i386, x64

Package: cn.mops
Version: 1.4.12
Depends: R (>= 2.12), BiocGenerics, Biobase, IRanges, GenomicRanges
Imports: methods, graphics, BiocGenerics, IRanges, Rsamtools,
Suggests: snow, DNAcopy
License: LGPL (>= 2.0)
Archs: i386, x64

Package: CNORdt
Version: 1.0.0
Depends: R (>= 1.8.0), CellNOptR (>= 0.99), abind
License: GPL-2
Archs: i386, x64

Package: CNORfuzzy
Version: 1.0.0
Depends: R (>= 2.15.0), CellNOptR (>= 1.3.29), nloptr (>= 0.8.5)
Suggests: xtable, Rgraphviz, RUnit, BiocGenerics
License: GPL-2

Package: CNORode
Version: 1.0.0
Depends: CellNOptR, genalg
Enhances: MEIGOR
License: GPL-2
Archs: i386, x64

Package: CNTools
Version: 1.14.0
Depends: R (>= 2.10), methods, tools, stats, genefilter
License: LGPL
Archs: i386, x64

Package: cnvGSA
Version: 1.2.0
Depends: methods, brglm
Suggests: cnvGSAdata, org.Hs.eg.db
License: LGPL

Package: CNVtools
Version: 1.52.0
Depends: R (>= 2.10), survival
License: GPL-3
Archs: i386, x64

Package: CoCiteStats
Version: 1.30.0
Depends: R (>= 2.0), org.Hs.eg.db
Imports: AnnotationDbi
License: CPL

Package: codelink
Version: 1.26.0
Depends: R (>= 2.10), BiocGenerics (>= 0.3.2), methods, Biobase (>=
        2.17.8), limma
Imports: BiocGenerics, annotate
Suggests: genefilter, parallel
License: GPL-2

Package: coGPS
Version: 1.2.0
Depends: R (>= 2.13.0)
Imports: graphics, grDevices
Suggests: limma
License: GPL-2

Package: ConsensusClusterPlus
Version: 1.10.0
Imports: Biobase, ALL, graphics, stats, utils
License: GPL-2

Package: convert
Version: 1.34.0
Depends: R (>= 2.6.0), Biobase (>= 1.15.33), limma (>= 1.7.0), marray,
        utils, methods
License: LGPL

Package: copa
Version: 1.26.0
Depends: Biobase, methods
Suggests: colonCA
License: Artistic-2.0
Archs: i386, x64

Package: Cormotif
Version: 1.4.0
Depends: R (>= 2.12.0), affy, limma
Imports: affy, graphics, grDevices
License: GPL-2

Package: CorMut
Version: 1.0.0
Depends: methods, Biostrings, seqinr,igraph
License: GPL-2

Package: coRNAi
Version: 1.8.0
Depends: R (>= 2.10), cellHTS2, limma, locfit
Imports: MASS, gplots, lattice, grDevices, graphics, stats
License: Artistic-2.0

Package: CORREP
Version: 1.24.0
Imports: e1071, stats
Suggests: cluster, MASS
License: GPL (>= 2)

Package: cosmoGUI
Version: 1.24.0
Depends: tkWidgets, cosmo
License: LGPL (>= 2)

Package: cqn
Version: 1.4.0
Depends: R (>= 2.10.0), mclust, nor1mix, stats, preprocessCore,
        splines, quantreg
Imports: splines
Suggests: scales, edgeR
License: Artistic-2.0

Package: CRImage
Version: 1.6.1
Depends: EBImage, DNAcopy, aCGH
Imports: MASS, e1071, foreach, sgeostat
License: Artistic-2.0

Package: crlmm
Version: 1.16.9
Depends: R (>= 2.14.0), oligoClasses (>= 1.19.39), preprocessCore (>=
        1.17.7)
Imports: methods, Biobase (>= 2.15.4), BiocGenerics, affyio (>=
        1.23.2), ellipse, genefilter (>= 1.37.1), mvtnorm, splines,
        stats, SNPchip, utils, lattice, ff, foreach, RcppEigen
LinkingTo: preprocessCore (>= 1.17.7)
Suggests: hapmapsnp6, genomewidesnp6Crlmm (>= 1.0.4), GGdata, snpStats,
        ellipse, RUnit
License: Artistic-2.0
Archs: i386, x64

Package: CSAR
Version: 1.10.0
Depends: R (>= 2.15.0), IRanges, GenomicRanges
Imports: stats, utils
Suggests: ShortRead, Biostrings
License: Artistic-2.0
Archs: i386, x64

Package: ctc
Version: 1.32.0
Depends: amap
License: GPL-2

Package: cummeRbund
Version: 2.0.0
Depends: R (>= 2.7.0), BiocGenerics (>= 0.3.2), RSQLite, ggplot2,
        reshape2, fastcluster, rtracklayer, Gviz
Imports: methods, plyr, BiocGenerics
Suggests: cluster, plyr
License: Artistic-2.0

Package: cycle
Version: 1.12.0
Depends: R (>= 2.10.0), Mfuzz
Imports: Biobase, stats
License: GPL-2

Package: daMA
Version: 1.30.0
Imports: MASS, stats
License: GPL (>= 2)

Package: DART
Version: 1.4.0
Depends: R (>= 2.10.0), igraph0
Suggests: breastCancerVDX, breastCancerMAINZ, Biobase
License: GPL-2

Package: DAVIDQuery
Version: 1.18.0
Depends: RCurl (>= 1.4.0), utils
License: GPL-2

Package: DBChIP
Version: 1.2.0
Depends: R (>= 2.15.0), edgeR, DESeq
Suggests: ShortRead, BiocGenerics
License: GPL (>= 2)

Package: ddCt
Version: 1.12.0
Depends: R (>= 2.3.0), Biobase (>= 1.10.0), RColorBrewer (>= 0.1-3),
        xtable, lattice, methods
Suggests: RUnit
License: LGPL-3

Package: ddgraph
Version: 1.2.0
Depends: graph, methods, Rcpp
Imports: bnlearn (>= 2.8), infotheo, gtools, pcalg, RColorBrewer,
        plotrix, MASS
LinkingTo: Rcpp
Suggests: testthat, Rgraphviz, e1071, ROCR, testthat
License: GPL-3
Archs: i386, x64

Package: DECIPHER
Version: 1.4.0
Depends: R (>= 2.13.0), Biostrings (>= 2.16), RSQLite (>= 0.9),
        IRanges, stats
Imports: Biostrings, RSQLite, IRanges, stats
LinkingTo: Biostrings, RSQLite, IRanges, stats
License: GPL-3
Archs: i386, x64

Package: DeconRNASeq
Version: 1.0.0
Depends: R (>= 2.14.0), limSolve, pcaMethods, ggplot2, grid
License: GPL-2

Package: DEDS
Version: 1.32.0
Depends: R (>= 1.7.0)
License: LGPL
Archs: i386, x64

Package: deepSNV
Version: 1.4.0
Depends: R (>= 2.13.0), Rsamtools (>= 1.4.3), GenomicRanges, IRanges,
        Biostrings, VGAM, methods, graphics
Imports: Rsamtools
LinkingTo: Rsamtools
License: GPL-3
Archs: i386, x64

Package: DEGraph
Version: 1.10.0
Depends: R (>= 2.10.0), R.utils
Imports: graph, KEGGgraph, lattice, mvtnorm, R.methodsS3, RBGL,
        Rgraphviz, rrcov, NCIgraph
Suggests: corpcor, fields, graph, KEGGgraph, lattice, marray, RBGL,
        rrcov, Rgraphviz, NCIgraph
License: GPL-3

Package: DEGseq
Version: 1.12.0
Depends: R (>= 2.8.0), qvalue, samr, methods
Imports: graphics, grDevices, methods, stats, utils
License: LGPL (>= 2)
Archs: i386, x64

Package: DESeq
Version: 1.10.1
Depends: Biobase (>= 2.13.11), locfit, lattice
Imports: genefilter, geneplotter, methods, MASS, RColorBrewer
Suggests: pasilla (>= 0.2.10), vsn, gplots
License: GPL (>= 3)
Archs: i386, x64

Package: DEXSeq
Version: 1.4.0
Depends: Biobase (>= 2.13.11)
Imports: biomaRt, hwriter, methods, stringr, statmod (>= 1.4.15)
Suggests: pasilla (>= 0.2.13)
Enhances: parallel
License: GPL (>= 3)

Package: DFP
Version: 1.16.0
Depends: methods, Biobase (>= 2.5.5)
License: GPL-2

Package: DiffBind
Version: 1.4.2
Depends: R (>= 2.14.0), GenomicRanges
Imports: RColorBrewer, amap, edgeR (>= 2.3.58), gplots, DESeq,
        grDevices, stats, utils, IRanges, zlibbioc
LinkingTo: Rsamtools
Suggests: DESeq
Enhances: rgl, parallel
License: Artistic-2.0
Archs: i386, x64

Package: diffGeneAnalysis
Version: 1.40.0
Imports: graphics, grDevices, minpack.lm (>= 1.0-4), stats, utils
License: GPL

Package: DirichletMultinomial
Version: 1.0.0
Depends: IRanges
Imports: stats4, methods
Suggests: lattice, parallel, MASS, RColorBrewer, xtable
License: LGPL-3
Archs: i386, x64

Package: dks
Version: 1.4.0
Depends: R (>= 2.8)
Imports: cubature
License: GPL

Package: DNAcopy
Version: 1.32.0
License: GPL (>= 2)
Archs: i386, x64

Package: domainsignatures
Version: 1.18.0
Depends: R (>= 2.4.0), KEGG.db, prada, biomaRt, methods
Imports: AnnotationDbi
License: Artistic-2.0

Package: DOSE
Version: 1.4.0
Depends: R (>= 2.10), ggplot2
Imports: methods, plyr, qvalue, stats4, AnnotationDbi, DO.db,
        org.Hs.eg.db, igraph, scales, reshape2, graphics, GOSemSim
Suggests: clusterProfiler, ReactomePA
License: Artistic-2.0

Package: DSS
Version: 1.0.0
Depends: Biobase, locfdr
Imports: methods
License: GPL

Package: DTA
Version: 2.4.0
Depends: R (>= 2.10), LSD
Imports: scatterplot3d
License: Artistic-2.0

Package: dualKS
Version: 1.18.0
Depends: R (>= 2.6.0), Biobase (>= 1.15.0), affy, methods
License: LGPL (>= 2.0)

Package: dyebias
Version: 1.16.0
Depends: R (>= 1.4.1), marray, Biobase
Suggests: limma, convert, GEOquery, dyebiasexamples, methods
License: GPL-3

Package: DynDoc
Version: 1.36.0
Depends: methods, utils
Imports: methods
License: Artistic-2.0

Package: EasyqpcR
Version: 1.2.0
Imports: plyr, matrixStats, plotrix, gWidgetsRGtk2
Suggests: SLqPCR, qpcrNorm, qpcR, knitr
License: GPL (>= 2)

Package: easyRNASeq
Version: 1.4.2
Depends: graphics, methods, parallel, utils, genomeIntervals (>=
        1.14.0), Biobase (>= 2.18.0), BiocGenerics (>= 0.4.0), biomaRt
        (>= 2.14.0), edgeR (>= 3.0.0), Biostrings (>= 2.26.0), BSgenome
        (>= 1.26.0), DESeq (>= 1.10.0), GenomicRanges (>= 1.10.0),
        IRanges (>= 1.16.0), Rsamtools (>= 1.10.0), ShortRead (>=
        1.16.0)
Suggests: BSgenome.Dmelanogaster.UCSC.dm3 (>= 1.3.17), GenomicFeatures
        (>= 1.10.0), RnaSeqTutorial (>= 0.0.10)
Enhances: edgeR, genomeIntervals, DESeq, ShortRead
License: Artistic-2.0

Package: EBarrays
Version: 2.22.0
Depends: R (>= 1.8.0), Biobase, lattice, methods
Imports: Biobase, cluster, graphics, grDevices, lattice, methods, stats
License: GPL (>= 2)
Archs: i386, x64

Package: EBcoexpress
Version: 1.2.0
Depends: EBarrays, mclust, minqa
Suggests: graph, igraph, colorspace
License: GPL (>= 2)
Archs: i386, x64

Package: EBImage
Version: 4.0.0
Imports: methods, graphics, stats, abind, utils, tiff, jpeg, png
License: LGPL
Archs: i386, x64

Package: ecolitk
Version: 1.30.1
Depends: R (>= 2.10)
Imports: Biobase, graphics, methods
Suggests: ecoliLeucine, ecolicdf, graph, multtest, affy
License: GPL (>= 2)

Package: EDASeq
Version: 1.4.0
Depends: BiocGenerics (>= 0.1.3), Biobase (>= 2.15.1), ShortRead (>=
        1.11.42), Rsamtools (>= 1.5.75), aroma.light
Imports: methods, graphics, BiocGenerics, IRanges (>= 1.13.9), DESeq
Suggests: yeastRNASeq, leeBamViews, edgeR, DESeq
License: Artistic-2.0

Package: edgeR
Version: 3.0.8
Depends: R (>= 2.15.0), methods, limma
Suggests: MASS, statmod, splines, locfit, KernSmooth
License: GPL (>= 2)
Archs: i386, x64

Package: eisa
Version: 1.10.0
Depends: BiocGenerics (>= 0.3.2), methods, isa2, Biobase (>= 2.17.8),
        AnnotationDbi, Category (>= 2.23.4), genefilter, DBI
Imports: BiocGenerics
Suggests: igraph0 (>= 0.5.5), Matrix, GOstats, GO.db, KEGG.db, biclust,
        MASS, xtable, ALL, hgu95av2.db, targetscan.Hs.eg.db,
        org.Hs.eg.db
License: GPL (>= 2)

Package: ENVISIONQuery
Version: 1.6.0
Depends: rJava, XML, utils
License: GPL-2

Package: ExiMiR
Version: 2.0.0
Depends: R (>= 2.10), Biobase (>= 2.5.5), affy (>= 1.26.1), limma
Imports: affyio(>= 1.13.3), Biobase(>= 2.5.5), preprocessCore(>=
        1.10.0)
License: GPL-2

Package: exomeCopy
Version: 1.4.4
Depends: IRanges, GenomicRanges, Rsamtools
Imports: stats4, methods
Suggests: Biostrings
License: GPL (>= 2)
Archs: i386, x64

Package: explorase
Version: 1.22.0
Depends: R (>= 2.6.2)
Imports: limma, rggobi, RGtk2
Suggests: cairoDevice
License: GPL-2

Package: ExpressionView
Version: 1.10.1
Depends: caTools, bitops, methods, isa2, eisa, GO.db, KEGG.db,
        AnnotationDbi
Imports: methods, isa2, eisa, GO.db, KEGG.db, AnnotationDbi
Suggests: ALL, hgu95av2.db, biclust, affy
License: GPL (>= 2)
Archs: i386, x64

Package: externalVector
Version: 1.24.0
Depends: R (>= 1.8.0), methods, stats
License: LGPL
Archs: i386, x64

Package: fabia
Version: 2.4.0
Depends: R (>= 2.8.0), Biobase
Imports: methods, graphics, grDevices, stats, utils
License: LGPL (>= 2.1)
Archs: i386, x64

Package: factDesign
Version: 1.34.1
Depends: Biobase (>= 2.5.5)
Imports: stats
Suggests: affy, genefilter, multtest
License: LGPL

Package: farms
Version: 1.10.0
Depends: R (>= 2.8), affy (>= 1.20.0), MASS, methods
Imports: affy, MASS, Biobase (>= 1.13.41), methods, graphics
Suggests: affydata, Biobase, utils
License: LGPL (>= 2.1)

Package: fastseg
Version: 1.4.0
Depends: R (>= 2.13), GenomicRanges, Biobase
Imports: graphics, stats, IRanges, BiocGenerics
Suggests: DNAcopy, oligo
License: LGPL (>= 2.0)
Archs: i386, x64

Package: fdrame
Version: 1.30.0
Imports: tcltk, graphics, grDevices, stats, utils
License: GPL (>= 2)
Archs: i386, x64

Package: ffpe
Version: 1.2.0
Depends: R (>= 2.10.0), TTR, methods
Imports: Biobase, BiocGenerics, affy, lumi, methylumi, sfsmisc
Suggests: genefilter, affy, ffpeExampleData
License: GPL (> 2)

Package: flagme
Version: 1.14.0
Depends: gcspikelite, xcms
Imports: gplots, graphics, MASS, methods, SparseM, stats, utils
License: LGPL (>= 2)
Archs: i386, x64

Package: flowClust
Version: 2.16.0
Depends: R(>= 2.5.0),BiocGenerics, methods, mnormt, ellipse, Biobase,
        flowCore(>= 1.11.23)
Imports: stats4
Suggests: snowfall
Enhances: multicore
License: Artistic-2.0
Archs: i386, x64

Package: flowCore
Version: 1.24.2
Depends: R (>= 2.10.0), Biobase, rrcov
Imports: Biobase, BiocGenerics (>= 0.1.14), feature, graph, graphics,
        grDevices, MASS, methods, rrcov, stats, utils, stats4
Suggests: Rgraphviz, flowViz, ncdf
License: Artistic-2.0
Archs: i386, x64

Package: flowFlowJo
Version: 1.16.0
Depends: R (>= 2.5.0), MASS,
Imports: flowCore, XML (>= 1.96), methods, Biobase
License: GPL (>= 3)

Package: flowFP
Version: 1.16.0
Depends: R (>= 2.10), flowCore, flowViz
Imports: Biobase, BiocGenerics (>= 0.1.6), flowCore, flowViz, graphics,
        grDevices, methods, stats, stats4
Suggests: RUnit
License: Artistic-2.0
Archs: i386, x64

Package: flowMeans
Version: 1.10.0
Depends: R (>= 2.10.0)
Imports: Biobase, graphics, grDevices, methods, rrcov, stats, feature,
        flowCore
License: Artistic-2.0

Package: flowMerge
Version: 2.6.0
Depends: Rgraphviz, flowClust, flowCore,
        methods,snow,foreach,graph,feature
Imports: rrcov, flowClust,flowCore, graphics, methods, rrcov, stats,
        utils, BiocGenerics (>= 0.1.6)
Suggests: Rgraphviz
Enhances: doMC, multicore
License: Artistic-2.0

Package: flowPeaks
Version: 1.0.0
Depends: R (>= 2.12.0)
Enhances: flowCore
License: Artistic-1.0
Archs: i386, x64

Package: flowPhyto
Version: 1.10.0
Depends: R (>= 1.8.0)
Imports: caroline, flowClust, flowCore, flowMeans, TTR
Suggests: RPostgreSQL, zoo, maps, mapdata, plotrix
License: Artistic-2.0

Package: flowPlots
Version: 1.6.0
Depends: R (>= 2.13.0), methods
Suggests: vcd
License: Artistic-2.0

Package: flowQ
Version: 1.18.0
Depends: R (>= 2.10.0), methods, BiocGenerics (>= 0.1.3), outliers,
        lattice, flowViz, mvoutlier, bioDist, parody, RColorBrewer,
        latticeExtra
Imports: methods, BiocGenerics, geneplotter, flowCore, flowViz, IRanges
Suggests: flowStats
License: Artistic-2.0

Package: flowQB
Version: 1.0.1
Imports: Biobase, graphics,methods, flowCore,stats
Suggests: flowCore
License: Artistic-2.0

Package: flowStats
Version: 1.16.0
Depends: R (>= 2.10), flowCore (>= 1.10.0), fda (>= 2.2.6), mvoutlier,
        cluster, flowWorkspace
Imports: BiocGenerics, MASS, flowViz, flowCore, fda (>= 2.2.6),
        Biobase, methods, grDevices, graphics, stats, utils,
        KernSmooth, lattice,compositions
Suggests: flowViz, xtable
Enhances: RBGL,ncdfFlow,graph
License: Artistic-2.0

Package: flowTrans
Version: 1.10.0
Depends: R (>= 2.11.0), flowCore, flowViz,flowClust
Imports: flowCore, methods, flowViz, stats, flowClust
License: Artistic-2.0

Package: flowType
Version: 1.4.0
Depends: R (>= 2.10)
Imports: Biobase, graphics, grDevices, methods, flowCore, flowMeans,
        sfsmisc, rrcov, flowClust, flowMerge, stats
Suggests: xtable
License: Artistic-2.0

Package: flowUtils
Version: 1.18.0
Depends: R (>= 2.2.0), flowCore (>= 1.2.0)
Imports: Biobase, flowCore, graph, methods, RUnit, stats, utils, XML,
        flowViz
Suggests: gatingMLData
License: Artistic-2.0

Package: flowViz
Version: 1.22.0
Depends: R (>= 2.7.0), flowCore (>= 1.5.17), lattice, grDevices
Imports: stats4, Biobase, flowCore, graphics, grDevices, grid,
        KernSmooth, lattice, latticeExtra, MASS, methods, RColorBrewer,
        stats, utils, hexbin,IDPmisc
Suggests: colorspace,RColorBrewer
License: Artistic-2.0

Package: flowWorkspace
Version: 1.4.0
Depends: Cairo, BiocGenerics, methods, RBGL, graph, XML, flowCore,
        flowViz, Biobase, IDPmisc, tools,hexbin
Imports: Biobase, XML, flowCore, graph, graphics, lattice, methods,
        stats, stats4, utils
Suggests: testthat, flowWorkspaceData, Rgraphviz
Enhances: multicore,Rmpi,ncdfFlow
License: Artistic-2.0
Archs: i386, x64

Package: fmcsR
Version: 1.0.5
Depends: R (>= 2.10.0), ChemmineR, methods
License: Artistic-2.0
Archs: i386, x64

Package: frma
Version: 1.10.0
Depends: R (>= 2.10.0), Biobase (>= 2.6.0)
Imports: Biobase, MASS, DBI, affy, methods, oligo, oligoClasses,
        preprocessCore, utils, BiocGenerics
Suggests: hgu133afrmavecs, frmaExampleData
License: GPL (>= 2)

Package: frmaTools
Version: 1.10.0
Depends: R (>= 2.10.0), affy
Imports: Biobase, DBI, methods, preprocessCore, stats, utils
Suggests: oligo, pd.huex.1.0.st.v2, pd.hugene.1.0.st.v1, frma, affyPLM,
        hgu133aprobe, hgu133atagprobe, hgu133plus2probe, hgu133acdf,
        hgu133atagcdf, hgu133plus2cdf, hgu133afrmavecs, frmaExampleData
License: GPL (>= 2)

Package: FunciSNP
Version: 1.1.8
Depends: R (>= 2.14.0), ggplot2, TxDb.Hsapiens.UCSC.hg19.knownGene,
        FunciSNP.data
Imports: AnnotationDbi, IRanges, Rsamtools (>= 1.6.1), rtracklayer(>=
        1.14.1), methods, ChIPpeakAnno (>= 2.2.0), GenomicRanges,
        VariantAnnotation, plyr, org.Hs.eg.db, snpStats, ggplot2 (>=
        0.9.0), reshape (>= 0.8.4), scales
Enhances: parallel
License: GPL-3

Package: gaga
Version: 2.4.0
Depends: R (>= 2.8.0), Biobase, coda, EBarrays, mgcv
Enhances: multicore
License: GPL (>= 2)
Archs: i386, x64

Package: gage
Version: 2.8.0
Depends: R (>= 2.10), graph, multtest
Suggests: gageData, GO.db, GSEABase, KEGG.db, org.Hs.eg.db
License: GPL (>= 2.0)

Package: gaggle
Version: 1.26.0
Depends: R (>= 2.3.0), rJava (>= 0.4), graph (>= 1.10.2), RUnit (>=
        0.4.17)
License: GPL (>= 2)

Package: gaia
Version: 2.2.0
Depends: R (>= 2.10)
License: GPL-2

Package: gcrma
Version: 2.30.0
Depends: R (>= 2.6.0), affy (>= 1.23.2), graphics, methods, stats,
        utils
Imports: Biobase, affy (>= 1.23.2), affyio (>= 1.13.3), IRanges,
        Biostrings (>= 2.11.32), splines, BiocInstaller
Suggests: affydata, tools, splines, hgu95av2cdf, hgu95av2probe
License: LGPL
Archs: i386, x64

Package: genArise
Version: 1.34.0
Depends: R (>= 1.7.1), locfit, tkrplot, methods
Imports: graphics, grDevices, methods, stats, tcltk, utils, xtable
License: file LICENSE

Package: gene2pathway
Version: 2.12.0
Depends: R (>= 2.10.0), kernlab (>= 0.9), biomaRt (>= 1.12.1), KEGGSOAP
        (>= 1.12.0), RBGL, AnnotationDbi,org.Dm.eg.db, keggorthology
        (>= 2.0)
Imports: SSOAP, RCurl
Enhances: doMC
License: GPL (>= 2)

Package: GeneAnswers
Version: 1.16.0
Depends: R (>= 2.10.0), igraph0, RCurl, annotate, Biobase (>= 1.12.0),
        methods, XML, RSQLite, MASS, rgl, Heatplus, RColorBrewer
Imports: graph, Rgraphviz, RBGL, annotate
Suggests: GO.db, KEGG.db, biomaRt, AnnotationDbi, org.Hs.eg.db,
        org.Rn.eg.db, org.Mm.eg.db, org.Dm.eg.db
License: LGPL (>= 2)

Package: GeneExpressionSignature
Version: 1.4.0
Depends: R (>= 2.13), Biobase, PGSEA
Suggests: apcluster,GEOquery
License: GPL-2

Package: genefilter
Version: 1.40.0
Imports: AnnotationDbi, annotate (>= 1.13.7), Biobase (>= 1.99.10),
        graphics, methods, stats, survival
Suggests: Biobase (>= 1.99.10), class, hgu95av2.db, methods, tkWidgets,
        ALL, ROC
License: Artistic-2.0
Archs: i386, x64

Package: genefu
Version: 1.8.0
Depends: R (>= 2.10), survcomp, mclust, biomaRt
Imports: amap
Suggests: GeneMeta, breastCancerVDX, breastCancerMAINZ,
        breastCancerTRANSBIG, breastCancerUPP, breastCancerUNT,
        breastCancerNKI, rmeta, Biobase, xtable
License: Artistic-2.0

Package: GeneGroupAnalysis
Version: 1.4.0
Depends: R (>= 2.10), MCMCpack, GO.db, breastCancerVDX,
        rheumaticConditionWOLLBOLD, hgu133a.db, hgu133plus2.db
Imports: AnnotationDbi, annotate, tcltk
License: Artistic-2.0
Archs: i386, x64

Package: GeneMeta
Version: 1.30.1
Depends: R (>= 2.10), methods, Biobase (>= 2.5.5), genefilter
Imports: methods, Biobase (>= 2.5.5)
Suggests: RColorBrewer
License: Artistic-2.0

Package: GeneNetworkBuilder
Version: 1.0.1
Depends: R (>= 2.15.1), Rcpp (>= 0.9.13), graph
Imports: plyr, graph
LinkingTo: Rcpp
Suggests: RUnit, BiocGenerics, Rgraphviz, XML, RCytoscape
License: GPL (>= 2)
Archs: i386, x64

Package: geneplotter
Version: 1.36.0
Depends: R (>= 2.10),Biobase (>= 2.5.5), annotate, lattice
Imports: annotate, AnnotationDbi, Biobase (>= 2.5.5), graphics,
        grDevices, grid, methods, RColorBrewer, stats, utils
Suggests: Biobase (>= 2.5.5), Rgraphviz, annotate, fibroEset,
        hgu95av2.db, hu6800.db, hgu133a.db
License: Artistic-2.0

Package: geneRecommender
Version: 1.30.0
Depends: R (>= 1.8.0), Biobase (>= 1.4.22), methods
Imports: Biobase, methods, stats
License: GPL (>= 2)

Package: GeneRegionScan
Version: 1.14.0
Depends: methods, Biobase (>= 2.5.5), Biostrings
Imports: Biobase (>= 2.5.5), affxparser, RColorBrewer, Biostrings
Suggests: BSgenome, affy, AnnotationDbi
License: GPL (>= 2)

Package: GeneSelectMMD
Version: 2.2.0
Depends: R (>= 2.13.2), Biobase
Imports: Biobase, MASS, graphics, stats, survival, limma
Suggests: ALL
License: GPL (>= 2)
Archs: i386, x64

Package: GeneSelector
Version: 2.8.0
Depends: R (>= 2.5.1), methods, stats, Biobase
Imports: multtest, siggenes, samr, limma
Suggests: multtest, siggenes, samr, limma
License: GPL (>= 2)
Archs: i386, x64

Package: GeneticsDesign
Version: 1.26.0
Imports: gmodels, graphics, gtools (>= 2.4.0), mvtnorm, stats
License: GPL-2

Package: GeneticsPed
Version: 1.20.0
Depends: R (>= 2.4.0), gdata (>= 2.3.0), genetics (>= 1.3.0), MASS
Suggests: RUnit, gtools
License: LGPL (>= 2.1)
Archs: i386, x64

Package: genoCN
Version: 1.10.0
Imports: graphics, stats, utils
License: GPL (>= 2)
Archs: i386, x64

Package: GenomeGraphs
Version: 1.18.0
Depends: R (>= 2.10), methods, biomaRt, grid
License: Artistic-2.0

Package: genomeIntervals
Version: 1.14.0
Depends: R (>= 2.15.0), methods, intervals (>= 0.13.3), BiocGenerics
        (>= 0.3.2)
Imports: methods, Biobase
License: Artistic-2.0

Package: genomes
Version: 2.4.0
Depends: R (>= 2.10), XML, RCurl, GenomicRanges, IRanges, Biostrings
License: Artistic-2.0

Package: GenomicFeatures
Version: 1.10.2
Depends: BiocGenerics (>= 0.1.0), IRanges (>= 1.15.35), GenomicRanges
        (>= 1.9.66), AnnotationDbi (>= 1.19.36)
Imports: methods, DBI (>= 0.2-5), RSQLite (>= 0.8-1), BiocGenerics,
        IRanges, GenomicRanges, Biostrings (>= 2.23.2), rtracklayer (>=
        1.15.1), biomaRt, RCurl, utils, Biobase (>= 2.15.1)
Suggests: rtracklayer, biomaRt, org.Mm.eg.db, Biostrings, BSgenome,
        BSgenome.Hsapiens.UCSC.hg18 (>= 1.3.14),
        BSgenome.Hsapiens.UCSC.hg19 (>= 1.3.17),
        BSgenome.Celegans.UCSC.ce2, BSgenome.Dmelanogaster.UCSC.dm3 (>=
        1.3.17), mirbase.db, FDb.UCSC.tRNAs,
        TxDb.Hsapiens.UCSC.hg18.knownGene,
        TxDb.Hsapiens.UCSC.hg19.knownGene,
        TxDb.Dmelanogaster.UCSC.dm3.ensGene (>= 2.7.1), Rsamtools,
        pasillaBamSubset (>= 0.0.5), RUnit
License: Artistic-2.0

Package: GenomicRanges
Version: 1.10.7
Depends: R (>= 2.10), methods, BiocGenerics (>= 0.1.12), IRanges (>=
        1.15.42)
Imports: methods, utils, BiocGenerics, IRanges
LinkingTo: IRanges
Suggests: Biostrings (>= 2.25.3), Rsamtools (>= 1.9.21), BSgenome,
        rtracklayer, GenomicFeatures, VariantAnnotation, edgeR, DESeq,
        DEXSeq, EatonEtAlChIPseq (>= 0.0.3), leeBamViews, pasilla,
        pasillaBamSubset, org.Sc.sgd.db,
        TxDb.Dmelanogaster.UCSC.dm3.ensGene,
        BSgenome.Scerevisiae.UCSC.sacCer2,
        BSgenome.Dmelanogaster.UCSC.dm3, RUnit, digest
License: Artistic-2.0
Archs: i386, x64

Package: Genominator
Version: 1.12.0
Depends: R (>= 2.10), methods, RSQLite, DBI (>= 0.2-5), BiocGenerics
        (>= 0.1.0), IRanges, GenomeGraphs
Imports: graphics, stats, utils
Suggests: biomaRt, ShortRead, yeastRNASeq
License: Artistic-2.0

Package: genoset
Version: 1.10.1
Depends: R (>= 2.10), BiocGenerics (>= 0.1.6), Biobase (>= 2.15.1),
        IRanges (>= 1.13.5), GenomicRanges
Imports: methods, graphics, GenomicRanges
Suggests: RUnit, DNAcopy, stats
Enhances: parallel
License: Artistic-2.0
Archs: i386, x64

Package: GEOmetadb
Version: 1.18.0
Depends: GEOquery,RSQLite
License: Artistic-2.0

Package: GEOquery
Version: 2.24.1
Depends: methods, Biobase
Imports: XML, RCurl
Suggests: limma, RUnit
License: GPL-2

Package: GEOsubmission
Version: 1.10.0
Imports: affy, Biobase, utils
License: GPL (>= 2)

Package: GEWIST
Version: 1.2.0
Depends: R (>= 2.10), car
License: GPL-2

Package: GGBase
Version: 3.20.0
Depends: R (>= 2.14), methods, snpStats
Imports: limma, genefilter, Biobase, BiocGenerics, Matrix,
        AnnotationDbi
License: Artistic-2.0

Package: ggbio
Version: 1.6.6
Depends: methods, ggplot2 (>= 0.9.2)
Imports: methods, biovizBase(>= 1.5.9), reshape2, gtable, ggplot2(>=
        0.9.2), BiocGenerics, Biobase, IRanges, GenomicRanges,
        GenomicFeatures, Rsamtools, BSgenome, gridExtra, scales, plyr,
        VariantAnnotation, Hmisc, rtracklayer
Suggests: BSgenome.Hsapiens.UCSC.hg19,
        TxDb.Hsapiens.UCSC.hg19.knownGene, affyPLM, chipseq,
        TxDb.Mmusculus.UCSC.mm9.knownGene, knitr
License: Artistic-2.0

Package: GGtools
Version: 4.6.2
Depends: R (>= 2.14), stats4, GGBase (>= 3.19.7), IRanges,
        GenomicRanges, Rsamtools
Imports: methods, utils, stats, BiocGenerics, snpStats, ff,
        AnnotationDbi, Biobase, bit, VariantAnnotation
Suggests: GGdata, illuminaHumanv1.db, SNPlocs.Hsapiens.dbSNP.20111119
Enhances: MatrixEQTL
License: Artistic-2.0

Package: girafe
Version: 1.10.1
Depends: R (>= 2.10.0), methods, IRanges (>= 1.3.53), Rsamtools,
        ShortRead (>= 1.3.21), intervals (>= 0.13.1), genomeIntervals
        (>= 1.7.3), grid
Imports: methods, Biobase, Biostrings, BSgenome, graphics, grDevices,
        stats, utils, IRanges
Suggests: MASS, org.Mm.eg.db, RColorBrewer
Enhances: genomeIntervals
License: Artistic-2.0
Archs: i386, x64

Package: GLAD
Version: 2.20.0
Depends: R (>= 2.10)
Suggests: aws, tcltk
License: GPL-2
Archs: i386, x64

Package: GlobalAncova
Version: 3.26.0
Depends: methods, corpcor, globaltest
Imports: annotate, AnnotationDbi
Suggests: Biobase, annotate, GO.db, KEGG.db, golubEsets, hu6800.db,
        vsn, GSEABase, Rgraphviz
License: GPL (>= 2)
Archs: i386, x64

Package: globaltest
Version: 5.12.0
Depends: methods
Imports: Biobase (>= 2.5.5), survival, AnnotationDbi, annotate,
        multtest, graphics
Suggests: vsn, golubEsets, KEGG.db, hu6800.db, Rgraphviz, GO.db,
        lungExpression, org.Hs.eg.db, annotate, Biobase (>= 2.5.5),
        survival, GSEABase, penalized, gss, MASS, boot, rpart
License: GPL (>= 2)

Package: GOFunction
Version: 1.4.0
Depends: R (>= 2.11.0), methods, Biobase (>= 2.8.0), graph (>= 1.26.0),
        Rgraphviz (>= 1.26.0), GO.db (>= 2.4.1), AnnotationDbi (>=
        1.10.2), SparseM (>= 0.85)
Imports: methods, Biobase, graph, Rgraphviz, GO.db, AnnotationDbi,
        SparseM
License: GPL (>= 2)

Package: goProfiles
Version: 1.20.0
Depends: Biobase, AnnotationDbi, GO.db
Suggests: org.Hs.eg.db
License: GPL-2

Package: GOSemSim
Version: 1.16.1
Depends: R (>= 2.10), Rcpp
Imports: methods, AnnotationDbi, GO.db, org.Hs.eg.db
LinkingTo: Rcpp
Suggests: DOSE, clusterProfiler
License: GPL-2
Archs: i386, x64

Package: goseq
Version: 1.10.0
Depends: R (>= 2.11.0), BiasedUrn, geneLenDataBase
Imports: mgcv, graphics, stats, utils, AnnotationDbi
Suggests: GO.db, edgeR, org.Hs.eg.db
License: LGPL (>= 2)

Package: GOstats
Version: 2.24.0
Depends: R (>= 2.10), Biobase (>= 1.15.29), Category (>= 2.3.26), graph
Imports: AnnotationDbi (>= 0.0.89), Biobase (>= 1.15.29), Category (>=
        2.3.26), GO.db (>= 1.13.0), RBGL, annotate (>= 1.13.2), graph
        (>= 1.15.15), methods, stats , AnnotationForge
Suggests: hgu95av2.db (>= 1.13.0), ALL, GO.db (>= 1.13.0), annotate,
        multtest, genefilter, RColorBrewer, Rgraphviz, xtable, SparseM,
        GSEABase, geneplotter, org.Hs.eg.db, RUnit, BiocGenerics
License: Artistic-2.0

Package: goTools
Version: 1.32.0
Depends: GO.db
Imports: AnnotationDbi, GO.db, graphics, grDevices
Suggests: hgu133a.db
License: GPL-2

Package: gpls
Version: 1.30.0
Imports: stats
Suggests: MASS
License: Artistic-2.0

Package: gprege
Version: 1.2.0
Depends: R (>= 2.8.0), gptk
Suggests: spam
License: AGPL-3

Package: graph
Version: 1.36.2
Depends: R (>= 2.10), methods
Imports: methods, stats, stats4, tools, utils, BiocGenerics (>= 0.1.11)
Suggests: SparseM (>= 0.36), XML, RBGL, RUnit, cluster
Enhances: Rgraphviz
License: Artistic-2.0
Archs: i386, x64

Package: GraphAlignment
Version: 1.20.0
License: file LICENSE
Archs: i386, x64

Package: GraphAT
Version: 1.30.0
Depends: R (>= 2.10), graph, methods
Imports: graph, MCMCpack, methods, stats
License: LGPL

Package: graphite
Version: 1.4.0
Depends: R (>= 2.10), graph
Imports: AnnotationDbi, graph, graphics, methods, org.Hs.eg.db, stats,
        utils
Suggests: DEGraph (>= 1.4), hgu133plus2.db, RCytoscape (>= 1.6), SPIA
        (>= 2.2), topologyGSA (>= 1.0)
License: AGPL-3

Package: GRENITS
Version: 1.10.0
Depends: R (>= 2.12.0), Rcpp (>= 0.8.6), RcppArmadillo (>= 0.2.8),
        ggplot2 (>= 0.9.0)
Imports: graphics, grDevices, reshape2, stats, utils
LinkingTo: Rcpp, RcppArmadillo
Suggests: network
License: GPL (>= 2)
Archs: i386, x64

Package: GSEABase
Version: 1.20.2
Depends: R (>= 2.6.0), BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
        annotate, methods, graph
Imports: BiocGenerics, annotate, AnnotationDbi, Biobase, graph,
        methods, XML
Suggests: hgu95av2.db, GO.db, org.Hs.eg.db, Rgraphviz
License: Artistic-2.0

Package: GSEAlm
Version: 1.18.0
Depends: Biobase
Suggests: GSEABase,Category, multtest, ALL, annotate, hgu95av2.db,
        genefilter, GOstats, RColorBrewer
License: Artistic-2.0

Package: GSRI
Version: 2.6.0
Depends: R (>= 2.14.2), fdrtool
Imports: methods, graphics, stats, utils, genefilter, Biobase,
        GSEABase, les (>= 1.1.6)
Suggests: limma, hgu95av2.db
Enhances: multicore
License: GPL-3

Package: GSVA
Version: 1.6.6
Depends: R (>= 2.13.0), methods, GSEABase (>= 1.17.4)
Imports: methods, BiocGenerics, Biobase, GSEABase
Suggests: limma, RColorBrewer, genefilter, mclust, edgeR, GSVAdata
Enhances: snow, parallel
License: GPL (>= 2)
Archs: i386, x64

Package: Gviz
Version: 1.2.1
Depends: R (>= 2.10.0), methods, grid
Imports: IRanges (>= 1.13.19), rtracklayer (>= 1.15.5), lattice,
        RColorBrewer, biomaRt (>= 2.11.0), GenomicRanges (>= 1.7.14),
        AnnotationDbi (>= 1.17.11), Biobase (>= 2.15.3), BiocGenerics
        (>= 0.1.4), GenomicFeatures (>= 1.9.7), BSgenome (>= 1.25.1),
        Biostrings (>= 2.25.1), biovizBase (>= 1.5.7)
Suggests: xtable, GenomicFeatures, BSgenome.Hsapiens.UCSC.hg19
License: Artistic-2.0

Package: gwascat
Version: 1.2.1
Depends: R (>= 2.14.0), methods, IRanges, GenomicRanges, snpStats,
        graph, BiocGenerics
Imports: Biostrings
Suggests: DO.db, Gviz, ggbio, rtracklayer
Enhances: SNPlocs.Hsapiens.dbSNP.20111119, pd.genomewidesnp.6
License: Artistic-2.0

Package: GWASTools
Version: 1.4.2
Depends: Biobase, ncdf, GWASExactHW, sandwich, gdsfmt
Imports: methods, DBI, RSQLite, DNAcopy, survival, lmtest, quantsmooth
Suggests: GWASdata, RUnit, SNPRelate, snpStats, VariantAnnotation
License: Artistic-2.0

Package: hapFabia
Version: 1.0.6
Depends: R (>= 2.12.0), Biobase, fabia (>= 2.3.1)
Imports: methods, graphics, grDevices, stats, utils, KernSmooth
License: LGPL (>= 2.1)
Archs: i386, x64

Package: Harshlight
Version: 1.30.0
Depends: R (>= 2.10)
Imports: affy, altcdfenvs, Biobase, stats, utils
License: GPL (>= 2)
Archs: i386, x64

Package: Heatplus
Version: 2.4.0
Imports: graphics, grDevices, stats
Suggests: Biobase, hgu95av2.db, limma
License: GPL (>= 2)

Package: HELP
Version: 1.16.1
Depends: R (>= 2.8.0), stats, graphics, grDevices, Biobase, methods
License: GPL (>= 2)

Package: HEM
Version: 1.30.0
Depends: R (>= 2.1.0)
Imports: Biobase, grDevices, stats, utils
License: GPL (>= 2)
Archs: i386, x64

Package: HilbertVis
Version: 1.16.0
Depends: R (>= 2.6.0), grid, lattice
Suggests: IRanges, EBImage
License: GPL (>= 3)
Archs: i386, x64

Package: HilbertVisGUI
Version: 1.16.0
Depends: R (>= 2.6.0), HilbertVis (>= 1.1.6)
Suggests: lattice, IRanges
License: GPL (>= 3)
Archs: i386, x64

Package: HiTC
Version: 1.2.0
Depends: R (>= 2.10.0), methods, girafe (>= 1.3.1), genomeIntervals (>=
        1.7.1), RColorBrewer
Imports: methods, Biobase, Biostrings, graphics, grDevices, ShortRead
License: Artistic-2.0

Package: HMMcopy
Version: 1.0.0
Depends: R (>= 2.10.0), IRanges (>= 1.4.16), geneplotter (>= 1.24.0)
License: GPL-3
Archs: i386, x64

Package: hopach
Version: 2.18.0
Depends: R (>= 2.11.0), cluster, Biobase, methods
Imports: Biobase, cluster, graphics, grDevices, methods, stats, utils
License: GPL (>= 2)
Archs: i386, x64

Package: hpar
Version: 1.0.1
Depends: R (>= 2.15)
Suggests: org.Hs.eg.db, GO.db, knitr
License: Artistic-2.0

Package: HTqPCR
Version: 1.12.0
Depends: Biobase, RColorBrewer, limma
Imports: affy, Biobase, gplots, graphics, grDevices, limma, methods,
        RColorBrewer, stats, stats4, utils
Suggests: statmod
License: Artistic-2.0

Package: HTSanalyzeR
Version: 2.10.0
Depends: R (>= 2.15), igraph0, methods
Imports: graph, igraph0, GSEABase, BioNet, cellHTS2, AnnotationDbi,
        biomaRt, RankProd
Suggests: KEGG.db, GO.db, org.Dm.eg.db, GOstats, org.Ce.eg.db,
        org.Mm.eg.db, org.Rn.eg.db, org.Hs.eg.db, snow
License: Artistic-2.0

Package: htSeqTools
Version: 1.4.0
Depends: R (>= 2.12.2), methods, BiocGenerics (>= 0.1.0), Biobase,
        IRanges, methods, MASS, BSgenome, GenomicRanges
Enhances: multicore
License: GPL (>= 2)

Package: HybridMTest
Version: 1.2.0
Depends: R (>= 2.9.0), Biobase, fdrtool, MASS, survival
Imports: stats
License: GPL (>= 2)

Package: hyperdraw
Version: 1.10.0
Depends: R (>= 2.9.0), methods, grid, graph, hypergraph, Rgraphviz
Imports: stats4
License: GPL (>= 2)

Package: hypergraph
Version: 1.30.0
Depends: R (>= 2.1.0), methods, graph
License: Artistic-2.0

Package: iASeq
Version: 1.2.0
Depends: R (>= 2.14.1)
Imports: graphics, grDevices
License: GPL-2

Package: iBBiG
Version: 1.2.0
Depends: biclust
Imports: stats4,xtable,ade4
Suggests: methods
License: Artistic-2.0
Archs: i386, x64

Package: ibh
Version: 1.6.0
Depends: simpIntLists
Suggests: yeastCC, stats
License: GPL (>= 2)

Package: Icens
Version: 1.30.0
Depends: survival
Imports: graphics
License: Artistic-2.0

Package: iChip
Version: 1.12.0
Depends: R (>= 2.10.0)
Imports: limma
License: GPL (>= 2)
Archs: i386, x64

Package: idiogram
Version: 1.34.0
Depends: R (>= 2.10), methods, Biobase, annotate, plotrix
Suggests: hu6800.db, hgu95av2.db, golubEsets
License: GPL-2

Package: IdMappingAnalysis
Version: 1.2.1
Depends: R (>= 2.14), R.oo (>= 1.10.1), rChoiceDialogs
Imports: boot, mclust, RColorBrewer, Biobase
License: GPL-2

Package: IdMappingRetrieval
Version: 1.4.0
Depends: R.oo, XML, RCurl, rChoiceDialogs, ENVISIONQuery
Imports: biomaRt, ENVISIONQuery, DAVIDQuery, AffyCompatible,
        R.methodsS3, R.oo, utils
License: GPL-2

Package: imageHTS
Version: 1.8.0
Depends: R (>= 2.9.0), EBImage (>= 3.99.17), cellHTS2 (>= 2.10.0)
Imports: tools, Biobase, hwriter, methods, vsn, stats, utils, e1071
Suggests: MASS
License: LGPL-2.1

Package: impute
Version: 1.32.0
Depends: R (>= 2.10)
License: GPL-2
Archs: i386, x64

Package: inSilicoDb
Version: 1.7.4
Depends: R (>= 2.11.0), rjson, Biobase
Imports: RCurl
Suggests: limma
License: GPL-2

Package: inSilicoMerging
Version: 1.2.3
Depends: R (>= 2.11.1), Biobase, DWD, limma
Imports: amap, moments
Suggests: BiocGenerics, inSilicoDb
License: GPL-2

Package: inveRsion
Version: 1.6.0
Depends: methods, haplo.stats
Imports: graphics, methods, utils
License: GPL (>= 2)
Archs: i386, x64

Package: iontree
Version: 1.4.0
Depends: methods, rJava, RSQLite, XML
Suggests: iontreeData
License: GPL-2

Package: iPAC
Version: 1.0.0
Depends: R(>= 2.15),gdata, scatterplot3d, Biostrings, multtest
License: GPL-2

Package: IPPD
Version: 1.6.0
Depends: R (>= 2.12.0), MASS, Matrix, XML, digest, bitops
Imports: methods, stats, graphics
License: GPL (>= 2)
Archs: i386, x64

Package: IRanges
Version: 1.16.6
Depends: R (>= 2.8.0), methods, utils, stats, BiocGenerics (>= 0.1.4)
Imports: methods, utils, stats, BiocGenerics, stats4
Suggests: GenomicRanges, RUnit
License: Artistic-2.0
Archs: i386, x64

Package: iSeq
Version: 1.10.0
Depends: R (>= 2.10.0)
License: GPL (>= 2)
Archs: i386, x64

Package: isobar
Version: 1.4.0
Depends: R (>= 2.10.0), Biobase, stats, methods, plyr
Imports: distr
Suggests: MSnbase, OrgMassSpecR, XML, biomaRt, ggplot2, Hmisc, RJSONIO
License: LGPL-2

Package: IsoGeneGUI
Version: 1.14.0
Depends: tcltk, tkrplot, IsoGene
Imports: multtest, relimp, WriteXLS,gdata, RColorBrewer, geneplotter
Suggests: RUnit
License: GPL-2

Package: ITALICS
Version: 2.18.0
Depends: R (>= 2.0.0), GLAD, ITALICSData, oligo, affxparser,
        pd.mapping50k.xba240
Imports: affxparser, DBI, GLAD, oligo, oligoClasses, stats
Suggests: pd.mapping50k.hind240, pd.mapping250k.sty, pd.mapping250k.nsp
License: GPL-2

Package: iterativeBMA
Version: 1.16.0
Depends: BMA, leaps, Biobase (>= 2.5.5)
License: GPL (>= 2)

Package: iterativeBMAsurv
Version: 1.16.0
Depends: BMA, leaps, survival, splines
Imports: graphics, grDevices, stats, survival, utils
License: GPL (>= 2)

Package: joda
Version: 1.6.0
Depends: R (>= 2.0), bgmm, RBGL
License: GPL (>= 2)

Package: KCsmart
Version: 2.16.0
Depends: methods, siggenes, multtest, KernSmooth
Enhances: Biobase, CGHbase
License: GPL-3

Package: KEGGgraph
Version: 1.14.0
Depends: R (>= 2.10), methods, XML (>= 2.3-0), graph
Imports: methods, XML, graph
Suggests: Rgraphviz, RBGL, RUnit, RColorBrewer, KEGG.db, org.Hs.eg.db,
        hgu133plus2.db, SPIA
License: GPL (>= 2)

Package: keggorthology
Version: 2.10.0
Depends: R (>= 2.5.0),stats,graph,hgu95av2.db
Imports: AnnotationDbi,graph,DBI, graph, grDevices, methods, stats,
        tools, utils
Suggests: RBGL,ALL
License: Artistic-2.0

Package: KEGGprofile
Version: 1.0.0
Depends: XML, png, TeachingDemos, KEGG.db
Imports: AnnotationDbi
License: GPL (>= 2)

Package: KEGGSOAP
Version: 1.32.1
Depends: methods, BiocGenerics
Imports: XML, RCurl, SSOAP (>= 0.2-2), XMLSchema
Suggests: RUnit
License: BSD

Package: lapmix
Version: 1.24.0
Depends: R (>= 2.6.0),stats
Imports: Biobase, graphics, grDevices, methods, stats, tools, utils
License: GPL (>= 2)

Package: LBE
Version: 1.26.0
Depends: stats
Imports: graphics, grDevices, methods, stats, utils
Suggests: qvalue
License: GPL-2

Package: les
Version: 1.8.0
Depends: R (>= 2.13.2), methods, graphics, fdrtool
Imports: boot, gplots, RColorBrewer
Suggests: Biobase, limma
Enhances: multicore
License: GPL-3

Package: limma
Version: 3.14.4
Depends: R (>= 2.3.0), methods
Suggests: affy, MASS, org.Hs.eg.db, splines, statmod (>= 1.2.2), vsn
License: GPL (>= 2)
Archs: i386, x64

Package: limmaGUI
Version: 1.34.0
Depends: limma, tcltk
Suggests: statmod, R2HTML, xtable, tkrplot
License: LGPL

Package: LiquidAssociation
Version: 1.12.0
Depends: geepack, methods, yeastCC, org.Sc.sgd.db
Imports: Biobase, graphics, grDevices, methods, stats
License: GPL (>= 3)

Package: lmdme
Version: 1.0.0
Depends: R (>= 2.14.1), methods, limma, pls
Imports: stats
Suggests: stemHypoxia
Enhances: parallel
License: GPL (>= 2)

Package: LMGene
Version: 2.14.0
Depends: R (>= 2.10.0), Biobase (>= 2.5.5), multtest, survival, affy
Suggests: affydata
License: LGPL

Package: logicFS
Version: 1.28.1
Depends: LogicReg, mcbiopi
Suggests: genefilter, siggenes
License: LGPL (>= 2)

Package: logitT
Version: 1.16.0
Depends: affy
Suggests: SpikeInSubset
License: GPL (>= 2)
Archs: i386, x64

Package: lol
Version: 1.6.0
Depends: penalized, Matrix
Imports: Matrix, penalized, graphics, grDevices, stats
License: GPL-2

Package: LPE
Version: 1.32.0
Depends: R (>= 2.10)
Imports: stats
License: LGPL

Package: LPEadj
Version: 1.18.0
Depends: LPE
Imports: LPE, stats
License: LGPL

Package: lumi
Version: 2.10.0
Depends: R (>= 2.10), Biobase (>= 2.5.5), nleqslv
Imports: affy (>= 1.23.4), methylumi (>= 2.3.2), annotate, Biobase (>=
        2.5.5), lattice, mgcv (>= 1.4-0), hdrcde, KernSmooth,
        preprocessCore, RSQLite, DBI, AnnotationDbi, MASS, graphics,
        stats, stats4, methods
Suggests: beadarray, limma, vsn, lumiBarnes, lumiHumanAll.db,
        lumiHumanIDMapping, genefilter, RColorBrewer
License: LGPL (>= 2)

Package: LVSmiRNA
Version: 1.8.0
Depends: R (>= 2.10), Biobase,quantreg,splines,MASS,limma,affy,methods,
        SparseM, vsn
Imports: BiocGenerics, stats4
Enhances: multicore,snow, Rmpi
License: GPL-2
Archs: i386, x64

Package: maanova
Version: 1.28.0
Depends: R (>= 2.10)
Imports: Biobase, graphics, grDevices, methods, stats, utils
Suggests: qvalue, snow
Enhances: Rmpi
License: GPL (>= 2)
Archs: i386, x64

Package: macat
Version: 1.32.0
Depends: Biobase, annotate
Suggests: hgu95av2.db, stjudem
License: Artistic-2.0

Package: maCorrPlot
Version: 1.28.0
Depends: lattice
Imports: graphics, grDevices, lattice, stats
License: GPL (>= 2)

Package: made4
Version: 1.32.0
Depends: ade4, RColorBrewer,gplots,scatterplot3d
Suggests: affy
License: Artistic-2.0

Package: maigesPack
Version: 1.22.0
Depends: R (>= 2.10), convert, graph, limma, marray, methods
Suggests: amap, annotate, class, e1071, MASS, multtest, OLIN, R2HTML,
        rgl, som
License: GPL (>= 2)
Archs: i386, x64

Package: makecdfenv
Version: 1.36.0
Depends: R (>= 2.6.0), methods
Imports: Biobase, affy, methods, stats, utils, zlibbioc
License: GPL (>= 2)
Archs: i386, x64

Package: MANOR
Version: 1.30.0
Depends: R (>= 2.10), GLAD
Imports: GLAD, graphics, grDevices, stats, utils
License: GPL-2
Archs: i386, x64

Package: manta
Version: 1.4.0
Depends: R (>= 1.8.0), methods, edgeR (>= 2.5.13)
Imports: Hmisc, caroline(>= 0.6.6)
Suggests: RSQLite, plotrix
License: Artistic-2.0

Package: MantelCorr
Version: 1.28.0
Depends: R (>= 2.10)
Imports: stats
License: GPL (>= 2)

Package: marray
Version: 1.36.0
Depends: R (>= 2.10.0), limma, methods
Suggests: tkWidgets
License: LGPL

Package: maSigPro
Version: 1.30.0
Depends: R (>= 2.3.1), stats, Biobase
Imports: Biobase, graphics, grDevices, limma, Mfuzz, stats, utils
License: GPL (>= 2)

Package: maskBAD
Version: 1.2.0
Depends: R (>= 2.10), gcrma (>= 2.27.1), affy
Suggests: hgu95av2probe
License: GPL (>= 2)

Package: MassArray
Version: 1.10.0
Depends: R (>= 2.10.0), methods
Imports: graphics, grDevices, methods, stats, utils
License: GPL (>= 2)

Package: MassSpecWavelet
Version: 1.24.0
Depends: waveslim
Suggests: xcms, caTools
License: LGPL (>= 2)
Archs: i386, x64

Package: matchBox
Version: 1.0.0
Depends: R (>= 2.8.0)
License: Artistic-2.0

Package: MBCB
Version: 1.12.0
Depends: R (>= 2.9.0), tcltk, tcltk2
Imports: preprocessCore, stats, utils
License: GPL (>= 2)

Package: mBPCR
Version: 1.12.0
Depends: oligoClasses, SNPchip
Imports: Biobase
Suggests: xtable
License: GPL (>= 2)

Package: mcaGUI
Version: 1.6.0
Depends: lattice, MASS, proto, foreign, gWidgets(>= 0.0-36),
        gWidgetsRGtk2(>= 0.0-53), OTUbase, vegan, bpca
Enhances: iplots, reshape, ggplot2, cairoDevice, OTUbase
License: GPL (>= 2)

Package: MCRestimate
Version: 2.14.0
Depends: R (>= 2.7.2), golubEsets (>= 1.4.6)
Imports: e1071 (>= 1.5-12), pamr (>= 1.22), randomForest (>= 3.9-6),
        RColorBrewer (>= 0.1-3), Biobase (>= 2.5.5), graphics,
        grDevices, stats, utils
Suggests: xtable (>= 1.2-1), ROC (>= 1.8.0), genefilter (>= 1.12.0),
        gpls (>= 1.6.0)
License: GPL (>= 2)

Package: mdqc
Version: 1.20.0
Depends: R (>= 2.2.1), cluster, MASS
License: LGPL (>= 2)

Package: MeasurementError.cor
Version: 1.30.0
License: LGPL

Package: MEDIPS
Version: 1.8.0
Depends: R (>= 2.12.0), BiocGenerics (>= 0.1.3), BSgenome
Imports: methods, BiocGenerics, Biostrings, BSgenome, graphics, gtools,
        IRanges, stats, utils
Suggests: BSgenome.Hsapiens.UCSC.hg19
License: GPL (>= 2)
Archs: i386, x64

Package: MEDME
Version: 1.18.0
Depends: R (>= 2.15), grDevices, graphics, methods, stats, utils
Imports: Biostrings, MASS, drc
Suggests: BSgenome.Hsapiens.UCSC.hg18, BSgenome.Mmusculus.UCSC.mm9
License: GPL (>= 2)
Archs: i386, x64

Package: MergeMaid
Version: 2.30.0
Depends: R (>= 2.10.0), survival, Biobase, MASS, methods
License: GPL (>= 2)

Package: metaArray
Version: 1.36.0
Imports: Biobase, MergeMaid, graphics, stats
License: LGPL-2
Archs: i386, x64

Package: metahdep
Version: 1.16.0
Depends: R (>= 2.10), methods
Suggests: affyPLM
License: GPL-3
Archs: i386, x64

Package: methVisual
Version: 1.10.0
Depends: R (>= 2.11.0), Biostrings(>= 2.4.8), plotrix,gsubfn,
        grid,sqldf
Imports: Biostrings, ca, graphics, grDevices, grid, gridBase, IRanges,
        stats, utils
License: GPL (>= 2)

Package: methyAnalysis
Version: 1.0.0
Depends: R (>= 2.10), grid, IRanges, Biobase (>= 2.5.5), org.Hs.eg.db
Imports: lumi, methylumi, Gviz, genoset, GenomicRanges, IRanges,
        rtracklayer, GenomicFeatures, annotate, Biobase (>= 2.5.5),
        AnnotationDbi, genefilter, biomaRt, methods
Suggests: IlluminaHumanMethylation450k.db,
        TxDb.Hsapiens.UCSC.hg19.knownGene
License: Artistic-2.0

Package: methylumi
Version: 2.4.0
Depends: Biobase, methods, R (>= 2.13), scales, reshape2, ggplot2
Imports: Biobase, graphics, lattice, annotate, genefilter,
        AnnotationDbi, stats4, BiocGenerics
Suggests: lumi, lattice, limma, xtable, IlluminaHumanMethylation27k.db
        (>= 1.4.4), IlluminaHumanMethylation450k.db, SQN, MASS,
        matrixStats, parallel
License: GPL-2

Package: Mfuzz
Version: 2.16.1
Depends: R (>= 2.5.0), Biobase (>= 2.5.5), e1071
Imports: tcltk, tkWidgets
Suggests: marray
License: GPL-2

Package: mgsa
Version: 1.6.0
Depends: R (>= 2.9.0), methods, gplots
Imports: gplots, graphics, stats, utils
Suggests: DBI, RSQLite, GO.db
License: Artistic-2.0
Archs: i386, x64

Package: MiChip
Version: 1.12.0
Depends: R (>= 2.3.0), Biobase
Imports: Biobase
License: GPL (>= 2)

Package: microRNA
Version: 1.16.0
Depends: R (>= 2.10)
Imports: Biostrings (>= 2.11.32)
Suggests: Biostrings (>= 2.11.32)
Enhances: Rlibstree
License: Artistic-2.0

Package: minet
Version: 3.12.0
Depends: infotheo
License: file LICENSE
Archs: i386, x64

Package: minfi
Version: 1.4.0
Depends: methods, BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8),
        lattice, reshape, GenomicRanges, Biostrings, utils
Imports: BiocGenerics, beanplot, RColorBrewer, nor1mix, siggenes,
        limma, preprocessCore, crlmm, matrixStats, mclust
Suggests: IlluminaHumanMethylation450kmanifest (>= 0.2.0), minfiData
        (>= 0.2.0), RUnit
License: Artistic-2.0

Package: MinimumDistance
Version: 1.2.4
Depends: R (>= 2.14), BiocGenerics (>= 0.3.2), IRanges (>= 1.13.30)
Imports: methods, DNAcopy, utils, msm, lattice, BiocGenerics,
        VanillaICE (>= 1.19.23), ff, SNPchip (>= 2.3.10), Biobase (>=
        2.17.8), foreach, oligoClasses (>= 1.19.34), GenomicRanges
Suggests: human610quadv1bCrlmm, RUnit
Enhances: snow, doSNOW
License: Artistic-2.0

Package: MiPP
Version: 1.30.0
Depends: R (>= 2.4)
Imports: Biobase, e1071, MASS, stats
License: GPL (>= 2)

Package: MiRaGE
Version: 1.0.0
Depends: R (>= 2.12.1), Biobase(>= 2.16.0)
Imports: AnnotationDbi, BiocGenerics
Suggests: seqinr (>= 3.0.3), biomaRt (>= 2.6.0), GenomicFeatures (>=
        1.8.1), Biostrings (>= 2.24.1), BSgenome.Hsapiens.UCSC.hg19,
        BSgenome.Mmusculus.UCSC.mm9, miRNATarget, humanStemCell,
        IRanges , GenomicRanges (>= 1.8.3), BSgenome,
        beadarrayExampleData
License: GPL

Package: miRNApath
Version: 1.18.0
Depends: methods, R(>= 2.7.0)
License: LGPL-2.1

Package: MLInterfaces
Version: 1.38.1
Depends: R (>= 2.9), Biobase, MASS, methods, genefilter, rpart, rda,
        annotate, cluster, sfsmisc
Imports: mboost, gdata, pls
Suggests: class, e1071, ipred, randomForest, gpls, pamr, rpart, MASS,
        nnet, ALL, gbm, mlbench, hgu95av2.db, som, RColorBrewer,
        hu6800.db, lattice, caret (>= 5.07), golubEsets, ada,
        keggorthology, kernlab, gbm, mboost, sfsmisc, party
Enhances: parallel
License: LGPL

Package: MLP
Version: 1.6.0
Depends: AnnotationDbi, affy, plotrix, gplots, gmodels, gdata, gtools
Suggests: GO.db, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db,
        org.Cf.eg.db, KEGG.db, annotate, Rgraphviz, GOstats, limma,
        mouse4302.db, reactome.db
License: GPL-3

Package: MmPalateMiRNA
Version: 1.6.0
Depends: R (>= 2.13.0), methods, Biobase, xtable, limma, statmod,
        lattice, vsn
Imports: limma, lattice, Biobase
Suggests: GOstats, graph, Category, org.Mm.eg.db, microRNA,
        targetscan.Mm.eg.db, RSQLite, DBI, AnnotationDbi, clValid,
        class, cluster, multtest, RColorBrewer, latticeExtra
License: LGPL-3

Package: mosaics
Version: 1.6.0
Depends: R (>= 2.11.1), methods, graphics, Rcpp
Imports: MASS, splines, lattice, IRanges
LinkingTo: Rcpp
Suggests: mosaicsExample
Enhances: parallel
License: GPL (>= 2)
Archs: i386, x64

Package: MotifDb
Version: 1.0.0
Depends: R (>= 2.15.0), methods, IRanges, Biostrings
Imports: BiocGenerics, rtracklayer
Suggests: RUnit, MotIV, seqLogo
License: Artistic-2.0

Package: motifRG
Version: 1.2.0
Depends: R (>= 2.10)
Imports: Biostrings, IRanges, seqLogo, parallel, methods, grid,graphics
License: Artistic-2.0

Package: motifStack
Version: 1.0.4
Depends: R (>= 2.15.1), methods, grImport
Imports: grImport, grid, XML
Suggests: RUnit, BiocGenerics, MotIV
License: GPL (>= 2)

Package: MotIV
Version: 1.14.0
Depends: R (>= 2.10), BiocGenerics (>= 0.1.0)
Imports: graphics, grid, methods, BiocGenerics, IRanges (>= 1.13.5),
        Biostrings (>= 1.24.0), lattice, rGADEM, stats, utils
Suggests: rtracklayer
License: GPL-2
Archs: i386, x64

Package: MSnbase
Version: 1.6.2
Depends: R (>= 2.10), methods, BiocGenerics (>= 0.1.3), Biobase (>=
        2.15.2), ggplot2, mzR
Imports: plyr, IRanges, preprocessCore, vsn, grid, reshape2, stats4,
        affy
Suggests: testthat, zoo, knitr, rols, Rdisop
Enhances: foreach, doMC, parallel
License: Artistic-2.0

Package: Mulcom
Version: 1.8.0
Depends: R (>= 2.10), fields, Biobase
Imports: graphics, grDevices, stats, methods
License: GPL-2
Archs: i386, x64

Package: multiscan
Version: 1.18.0
Depends: R (>= 2.3.0)
Imports: Biobase, utils
License: GPL (>= 2)
Archs: i386, x64

Package: multtest
Version: 2.14.0
Depends: R (>= 2.10), methods, Biobase
Imports: survival, MASS, stats4
Suggests: snow
License: LGPL
Archs: i386, x64

Package: MVCClass
Version: 1.32.0
Depends: R (>= 2.1.0), methods
License: LGPL

Package: mzR
Version: 1.4.7
Depends: Rcpp (>= 0.10.3), methods, utils
Imports: Biobase
LinkingTo: Rcpp
Suggests: msdata (>= 0.1.9), RUnit, faahKO
License: Artistic-2.0
Archs: i386, x64

Package: NarrowPeaks
Version: 1.2.0
Depends: R (>= 2.10.0), splines
Imports: GenomicRanges, IRanges, fda, CSAR
Suggests: rtracklayer, GenomicRanges, CSAR
License: Artistic-2.0
Archs: i386, x64

Package: NCIgraph
Version: 1.6.0
Depends: graph, R (>= 2.10.0)
Imports: graph, KEGGgraph, methods, RBGL, RCytoscape, R.methodsS3
Suggests: Rgraphviz
Enhances: DEGraph
License: GPL-3

Package: nem
Version: 2.34.0
Depends: R (>= 2.0), e1071 (>= 1.5), graph (>= 1.24), plotrix, limma,
        cluster (>= 1.11), statmod, Hmisc, Rgraphviz
Imports: boot, e1071, graph, graphics, grDevices, methods, RBGL (>=
        1.8.1), RColorBrewer, stats, utils, Rgraphviz
Suggests: Biobase (>= 1.10)
Enhances: doMC, Rglpk
License: GPL (>= 2)
Archs: i386, x64

Package: netresponse
Version: 1.10.0
Depends: R (>= 2.15.0), dmt, igraph0, ggplot2, graph, mclust, methods,
        minet, parallel, qvalue, RColorBrewer, reshape, Rgraphviz
License: GPL (>= 2)
Archs: i386, x64

Package: networkBMA
Version: 1.0.0
Depends: R (>= 2.15.0), stats, utils, BMA
License: GPL (>= 2)

Package: nnNorm
Version: 2.22.0
Depends: R(>= 2.2.0), marray
Imports: graphics, grDevices, marray, methods, nnet, stats
License: LGPL

Package: NOISeq
Version: 1.1.5
Depends: R (>= 2.13.0), methods, Biobase (>= 2.13.11)
License: Artistic-2.0

Package: NormqPCR
Version: 1.4.0
Depends: R(>= 2.14.0), stats, RColorBrewer, Biobase, methods, ReadqPCR
Imports: ReadqPCR
License: LGPL-3

Package: NTW
Version: 1.8.0
Depends: R (>= 2.3.0)
Imports: mvtnorm, stats, utils
License: GPL-2

Package: nucleR
Version: 1.6.0
Depends: methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.5), Biobase
        (>= 2.15.1), ShortRead, parallel
Imports: methods, BiocGenerics, IRanges, Biobase, ShortRead,
        GenomicRanges, stats
Enhances: htSeqTools
License: LGPL (>= 3)

Package: nudge
Version: 1.24.0
Imports: stats
License: GPL-2

Package: NuPoP
Version: 1.8.0
Depends: R (>= 2.10)
License: GPL-2
Archs: i386, x64

Package: occugene
Version: 1.18.0
Depends: R (>= 2.0.0)
License: GPL (>= 2)

Package: OCplus
Version: 1.32.0
Depends: R (>= 2.1.0), akima
Imports: multtest (>= 1.7.3), graphics, grDevices, stats
License: LGPL

Package: oligo
Version: 1.22.0
Depends: R (>= 2.15.0), BiocGenerics (>= 0.3.2), oligoClasses (>=
        1.19.43), Biobase (>= 2.17.8)
Imports: affyio (>= 1.25.0), affxparser (>= 1.29.11), Biostrings (>=
        2.25.12), BiocGenerics (>= 0.3.2), DBI (>= 0.2-5), ff,
        graphics, methods, preprocessCore (>= 1.19.0), splines, stats,
        stats4, utils, zlibbioc
LinkingTo: preprocessCore
Suggests: hapmap100kxba, pd.mapping50k.xba240, pd.huex.1.0.st.v2,
        pd.hg18.60mer.expr, pd.hugene.1.0.st.v1, maqcExpression4plex,
        genefilter, limma, RColorBrewer, oligoData, RUnit
Enhances: ff, doMC, doMPI
License: LGPL (>= 2)
Archs: i386, x64

Package: oligoClasses
Version: 1.20.0
Depends: R (>= 2.14), BiocGenerics (>= 0.3.2)
Imports: BiocGenerics, Biobase (>= 2.17.8), methods, graphics, IRanges
        (>= 1.13.30), GenomicRanges, Biostrings (>= 2.23.6), affyio (>=
        1.23.2), ff, foreach, BiocInstaller, utils
Suggests: RSQLite, hapmapsnp5, hapmapsnp6, pd.genomewidesnp.6,
        pd.genomewidesnp.5, pd.mapping50k.hind240,
        pd.mapping50k.xba240, pd.mapping250k.sty, pd.mapping250k.nsp,
        genomewidesnp6Crlmm, genomewidesnp5Crlmm, crlmm, SNPchip,
        VanillaICE, RUnit, human370v1cCrlmm
Enhances: doMC, doMPI, doSNOW, doParallel, doRedis
License: GPL (>= 2)

Package: OLIN
Version: 1.36.0
Depends: R (>= 2.10), methods, locfit, marray
Imports: graphics, grDevices, limma, marray, methods, stats
Suggests: convert
License: GPL-2

Package: OLINgui
Version: 1.32.1
Depends: R (>= 2.0.0), OLIN (>= 1.4.0)
Imports: graphics, marray, OLIN, tcltk, tkWidgets, widgetTools
License: GPL-2

Package: oneChannelGUI
Version: 1.24.0
Depends: Biobase, affylmGUI, tkWidgets, IRanges, Rsamtools, Biostrings,
        siggenes
Suggests: annotate, genefilter, maSigPro, pamr, pdmclass, ChIPpeakAnno,
        chipseq, BSgenome, Rgraphviz, affy ,annaffy, affyPLM, multtest,
        ssize, sizepower, RankProd, org.Hs.eg.db, org.Mm.eg.db,
        org.Rn.eg.db, edgeR, metaArray, MergeMaid, biomaRt,
        GenomeGraphs,AffyCompatible, rtracklayer, Genominator, EDASeq,
        limma, DESeq, goseq, hugene10sttranscriptcluster.db,
        mogene10sttranscriptcluster.db, ragene10sttranscriptcluster.db,
        GOstats, AnnotationDbi, preprocessCore, baySeq,
        HuExExonProbesetLocation, MoExExonProbesetLocation,
        RaExExonProbesetLocation, snow, RmiR, RmiR.Hs.miRNA,
        BSgenome.Hsapiens.UCSC.hg19, BSgenome.Mmusculus.UCSC.mm9,
        BSgenome.Rnorvegicus.UCSC.rn4, R.utils, cummeRbund
License: Artistic-2.0

Package: ontoCAT
Version: 1.10.0
Depends: rJava, methods
License: Apache License 2.0

Package: OrderedList
Version: 1.30.0
Depends: R (>= 2.1.0), Biobase (>= 1.5.12), twilight (>= 1.9.2),
        methods
Imports: Biobase, graphics, methods, stats, twilight
License: GPL (>= 2)

Package: OrganismDbi
Version: 1.0.3
Depends: R (>= 2.14.0), methods, AnnotationDbi (>= 1.16.10),
        GenomicFeatures
Imports: BiocGenerics, graph, RBGL, AnnotationDbi
Suggests: Homo.sapiens, Rattus.norvegicus, RUnit
License: Artistic-2.0

Package: OSAT
Version: 1.6.0
Depends: methods,stats
Suggests: xtable, Biobase
License: Artistic-2.0

Package: OTUbase
Version: 1.8.0
Depends: R (>= 2.9.0), methods, ShortRead (>= 1.4.0), Biobase, vegan
Imports: Biostrings, ShortRead, IRanges
License: Artistic-2.0

Package: OutlierD
Version: 1.22.0
Depends: R (>= 2.3.0), Biobase, quantreg
License: GPL (>= 2)

Package: PADOG
Version: 1.0.0
Depends: R (>= 2.14.0), KEGGdzPathwaysGEO, graphics, limma,
        AnnotationDbi, Biobase, methods, nlme, GSA,KEGG.db
Imports: graphics, limma, hgu133plus2.db, hgu133a.db, KEGG.db,
        AnnotationDbi, Biobase, methods, nlme
Suggests: parallel
License: GPL (>= 2)

Package: PAnnBuilder
Version: 1.22.0
Depends: R (>= 2.7.0), methods, utils, RSQLite, Biobase (>= 1.17.0),
        AnnotationDbi (>= 1.3.12)
Imports: methods, utils, Biobase, DBI, RSQLite, AnnotationDbi
Suggests: org.Hs.ipi.db
License: LGPL (>= 2.0)

Package: panp
Version: 1.28.1
Depends: R (>= 2.10), affy (>= 1.23.4), Biobase (>= 2.5.5)
Imports: Biobase, methods, stats, utils
Suggests: gcrma
License: GPL (>= 2)

Package: PANR
Version: 1.4.0
Depends: R (>= 2.14), igraph
Imports: graphics, grDevices, MASS, methods, pvclust, stats, utils
Suggests: snow, RedeR
License: Artistic-2.0

Package: parody
Version: 1.16.0
Depends: R (>= 2.5.0), methods, tools, utils
License: Artistic-2.0

Package: pathRender
Version: 1.26.0
Depends: graph, Rgraphviz, RColorBrewer, cMAP, AnnotationDbi, methods
Suggests: ALL, hgu95av2.db
License: LGPL

Package: pcaGoPromoter
Version: 1.2.0
Depends: R (>= 2.14.0) , ellipse
Imports: Biobase (>= 2.10.0) , AnnotationDbi
Suggests: Rgraphviz, GO.db, hgu133plus2.db, mouse4302.db, rat2302.db,
        hugene10sttranscriptcluster.db, mogene10sttranscriptcluster.db,
        Biostrings, pcaGoPromoter.Hs.hg19, pcaGoPromoter.Mm.mm9,
        pcaGoPromoter.Rn.rn4, serumStimulation, parallel
License: GPL (>= 2)

Package: pcaMethods
Version: 1.48.0
Depends: Biobase, methods, Rcpp (>= 0.8.7)
Imports: BiocGenerics, MASS
LinkingTo: Rcpp
Suggests: matrixStats, lattice
License: GPL (>= 3)
Archs: i386, x64

Package: pcot2
Version: 1.26.0
Depends: R (>= 2.0.0), grDevices, Biobase, amap
Suggests: multtest, hu6800.db, KEGG.db, mvtnorm
License: GPL (>= 2)

Package: PCpheno
Version: 1.20.0
Depends: R (>= 2.10), Category, ScISI (>= 1.3.0), SLGI, ppiStats,
        ppiData, annotate (>= 1.17.4)
Imports: AnnotationDbi, Biobase, Category, GO.db, graph, graphics,
        GSEABase, KEGG.db, methods, ScISI, stats, stats4
Suggests: KEGG.db, GO.db, org.Sc.sgd.db
License: Artistic-2.0

Package: pdInfoBuilder
Version: 1.22.0
Depends: R (>= 2.15.0), methods, Biobase (>= 2.17.7), RSQLite (>=
        0.11.1), affxparser (>= 1.29.12), oligo (>= 1.21.5)
Imports: Biostrings (>= 2.25.12), IRanges (>= 1.15.44)
License: Artistic-2.0
Archs: i386, x64

Package: pdmclass
Version: 1.30.0
Depends: Biobase (>= 1.4.22), R (>= 1.9.0), fibroEset, mda
License: Artistic-2.0

Package: PGSEA
Version: 1.32.0
Depends: R (>= 2.10), GO.db, KEGG.db, AnnotationDbi, annaffy, methods,
        Biobase (>= 2.5.5)
Suggests: GSEABase, GEOquery, org.Hs.eg.db, hgu95av2.db, limma
License: GPL-2

Package: phenoDist
Version: 1.6.0
Depends: R (>= 2.9.0), imageHTS, e1071
Suggests: GOstats, MASS
License: LGPL-2.1

Package: phenoTest
Version: 1.6.0
Depends: R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA
Imports: survival, limma, Hmisc, gplots, Category, AnnotationDbi,
        hopach, biomaRt, GSEABase, genefilter, xtable, annotate, mgcv,
        SNPchip, hgu133a.db, HTSanalyzeR
Suggests: GSEABase, KEGG.db, GO.db
Enhances: multicore, org.Ce.eg.db, org.Mm.eg.db, org.Rn.eg.db,
        org.Hs.eg.db, org.Dm.eg.db
License: GPL (>= 2)

Package: phyloseq
Version: 1.2.1
Depends: R (>= 2.15.0), methods, ade4 (>= 1.4), ggplot2 (>= 0.9.2),
        picante (>= 1.3)
Imports: ape (>= 3.0), foreach (>= 1.3), igraph0 (>= 0.5), multtest (>=
        2.8), plyr (>= 1.7.1), reshape (>= 0.8.4), RJSONIO (>= 0.98),
        scales (>= 0.2.2), vegan (>= 2.0)
Suggests: genefilter, testthat
Enhances: doParallel (>= 1.0)
License: AGPL-3

Package: pickgene
Version: 1.30.0
Imports: graphics, grDevices, MASS, stats, utils
License: GPL (>= 2)

Package: PICS
Version: 2.2.0
Depends: R (>= 2.14.0), BiocGenerics (>= 0.1.3)
Imports: methods, stats4, IRanges, GenomicRanges, graphics, grDevices,
        stats
Suggests: ShortRead, rtracklayer, parallel
License: Artistic-2.0
Archs: i386, x64

Package: PING
Version: 2.2.0
Depends: R(>= 2.15.0), chipseq, IRanges, GenomicRanges
Imports: methods, PICS, graphics, grDevices, stats, Gviz, fda,
        BSgenome, stats4, BiocGenerics, Rsamtools
Suggests: parallel, ShortRead, rtracklayer
License: Artistic-2.0
Archs: i386, x64

Package: pint
Version: 1.10.0
Depends: mvtnorm, methods, graphics, Matrix, dmt
License: FreeBSD

Package: pkgDepTools
Version: 1.24.0
Depends: methods, graph, RBGL
Imports: graph, RBGL
Suggests: Biobase, Rgraphviz, RCurl, BiocInstaller
License: GPL-2

Package: plateCore
Version: 1.16.0
Depends: R (>= 2.10), flowCore, flowViz, lattice, latticeExtra
Imports: Biobase, flowCore, graphics, grDevices, lattice, MASS,
        methods, robustbase, stats, utils
Suggests: gplots
License: Artistic-2.0

Package: plgem
Version: 1.30.0
Depends: R (>= 2.10), Biobase (>= 2.5.5), MASS
Imports: utils
License: GPL-2

Package: plier
Version: 1.28.0
Depends: R (>= 2.0), methods
Imports: affy, Biobase, methods
License: GPL (>= 2)
Archs: i386, x64

Package: PLPE
Version: 1.18.0
Depends: R (>= 2.6.2), Biobase (>= 2.5.5), LPE, MASS, methods
License: GPL (>= 2)

Package: plw
Version: 1.18.0
Depends: R (>= 2.10), affy (>= 1.23.4)
Imports: MASS, affy, graphics, splines, stats
Suggests: limma
License: GPL-2
Archs: i386, x64

Package: ppiStats
Version: 1.24.0
Depends: ScISI (>= 1.13.2), lattice, ppiData (>= 0.1.6)
Imports: Biobase, Category, graph, graphics, grDevices, lattice,
        methods, RColorBrewer, stats
Suggests: yeastExpData, xtable
License: Artistic-2.0

Package: prada
Version: 1.34.0
Depends: R (>= 2.10.0), Biobase, RColorBrewer, grid, methods, rrcov
Imports: Biobase, BiocGenerics, graphics, grDevices, grid, MASS,
        methods, RColorBrewer, rrcov, stats4, utils
Suggests: cellHTS, tcltk
License: LGPL
Archs: i386, x64

Package: PREDA
Version: 1.4.0
Depends: R (>= 2.9.0), Biobase, lokern (>= 1.0.9), multtest, stats,
        methods, annotate
Suggests: quantsmooth, qvalue, samr, limma, caTools, affy,
        PREDAsampledata
Enhances: Rmpi, rsprng
License: GPL-2

Package: preprocessCore
Version: 1.20.0
Depends: methods
Imports: stats
License: LGPL (>= 2)
Archs: i386, x64

Package: PROcess
Version: 1.34.0
Depends: Icens
Imports: graphics, grDevices, Icens, stats, utils
License: Artistic-2.0

Package: procoil
Version: 1.8.0
Depends: R (>= 2.10.1), methods
Imports: methods, stats, graphics, utils
Suggests: Biostrings
License: GPL (>= 2)

Package: PROMISE
Version: 1.10.0
Depends: R (>= 2.11.0), Biobase, GSEABase
Imports: Biobase, GSEABase, stats
License: GPL (>= 2)

Package: puma
Version: 3.0.0
Depends: R (>= 2.10), Biobase (>= 2.5.5), affy (>= 1.23.4), graphics,
        grDevices, methods, stats, utils, mclust
Imports: Biobase (>= 2.5.5), affy (>= 1.23.4)
Suggests: pumadata, affydata, snow, limma, annotate, ROCR
License: LGPL
Archs: i386, x64

Package: pvac
Version: 1.6.0
Depends: R (>= 2.8.0)
Imports: affy (>= 1.20.0), stats, Biobase
Suggests: pbapply, affydata, ALLMLL, genefilter
License: LGPL (>= 2.0)

Package: PWMEnrich
Version: 1.2.0
Depends: methods, Biostrings, grid
Imports: seqLogo, gdata, evd
Suggests: BSgenome.Dmelanogaster.UCSC.dm3,
        PWMEnrich.Dmelanogaster.background, testthat, gtools, parallel
License: GPL-3

Package: qpcrNorm
Version: 1.16.0
Depends: methods, Biobase, limma, affy
License: LGPL (>= 2)

Package: qpgraph
Version: 1.14.4
Depends: R (>= 2.10), methods
Imports: methods, annotate, Matrix, graph, Biobase, GGBase,
        AnnotationDbi
Suggests: Matrix, mvtnorm, graph, genefilter, Category,
        org.EcK12.eg.db, GOstats
Enhances: rlecuyer, snow, Rgraphviz
License: GPL (>= 2)
Archs: i386, x64

Package: qrqc
Version: 1.12.0
Depends: reshape, ggplot2, Biostrings, biovizBase, brew, xtable,
        Rsamtools (>= 1.3.28), testthat
Imports: reshape, ggplot2, Biostrings, biovizBase, graphics, methods,
        plyr, stats
LinkingTo: Rsamtools
License: GPL (>= 2)
Archs: i386, x64

Package: QUALIFIER
Version: 1.2.0
Depends: R (>=
        2.14.0),reshape,flowWorkspace,flowViz,flowCore,RColorBrewer
Imports:
        MASS,hwriter,RSVGTipsDevice,lattice,stats4,flowCore,flowViz,methods,flowWorkspace,reshape
Enhances: ncdfFlow
License: Artistic-2.0

Package: quantsmooth
Version: 1.24.0
Depends: R(>= 2.10.0), quantreg, grid
License: GPL-2

Package: qvalue
Version: 1.32.0
Imports: graphics, grDevices, stats, tcltk
License: LGPL

Package: r3Cseq
Version: 1.4.0
Depends: R (>= 2.14.0), IRanges, BSgenome,ShortRead, rtracklayer,
        RColorBrewer, methods
Suggests: BSgenome.Mmusculus.UCSC.mm9
License: GPL-3

Package: R453Plus1Toolbox
Version: 1.8.1
Depends: R (>= 2.12.0), BiocGenerics, Biobase, Biostrings,
        BSgenome.Scerevisiae.UCSC.sacCer2,TeachingDemos
Imports: BiocGenerics (>= 0.1.3), Biobase (>= 2.15.1), biomaRt,
        Biostrings, BSgenome, IRanges (>= 1.13.10), methods, R2HTML,
        Rsamtools, rtracklayer, ShortRead, VariantAnnotation
Suggests: rtracklayer, ShortRead, Rsamtools,
        BSgenome.Hsapiens.UCSC.hg19
License: LGPL-3
Archs: i386, x64

Package: rama
Version: 1.32.0
Depends: R(>= 2.5.0)
License: GPL (>= 2)
Archs: i386, x64

Package: RamiGO
Version: 1.4.0
Depends: gsubfn,methods
Imports: igraph,RCurl,png,RCytoscape,graph
License: Artistic-2.0

Package: randPack
Version: 1.4.0
Depends: methods
Imports: Biobase
License: Artistic-2.0

Package: RankProd
Version: 2.30.0
Depends: R (>= 1.9.0)
Imports: graphics
License: file LICENSE

Package: RbcBook1
Version: 1.26.0
Depends: R (>= 2.10), Biobase, graph, rpart
License: Artistic-2.0

Package: RBGL
Version: 1.34.0
Depends: graph, methods
Imports: methods
Suggests: Rgraphviz, XML
License: Artistic-2.0
Archs: i386, x64

Package: RBioinf
Version: 1.18.1
Depends: graph, methods
Suggests: Rgraphviz
License: Artistic-2.0
Archs: i386, x64

Package: rbsurv
Version: 2.16.0
Depends: R (>= 2.5.0), Biobase (>= 2.5.5), survival
License: GPL (>= 2)

Package: Rcade
Version: 1.0.0
Depends: R (>= 2.14.0), methods, GenomicRanges, baySeq, Rsamtools
Imports: graphics, IRanges, rgl
Suggests: limma, biomaRt, RUnit, BiocGenerics
License: GPL-2

Package: RCASPAR
Version: 1.4.0
License: GPL (>= 3)

Package: RchyOptimyx
Version: 1.2.0
Depends: R (>= 2.10)
Imports: Rgraphviz, sfsmisc, graphics, methods, graph, grDevices
Suggests: flowCore, flowType
License: Artistic-2.0
Archs: i386, x64

Package: RCytoscape
Version: 1.8.2
Depends: R (>= 2.14.0), graph (>= 1.31.0), XMLRPC (>= 0.2.4)
Imports: methods, XMLRPC, BiocGenerics
Suggests: RUnit
License: GPL-2

Package: Rdisop
Version: 1.18.0
Depends: R (>= 2.0.0), RcppClassic, Rcpp
LinkingTo: RcppClassic, Rcpp
Suggests: RUnit
License: GPL-2
Archs: i386, x64

Package: RDRToolbox
Version: 1.8.0
Depends: R (>= 2.9.0),rgl
Imports: graphics, grDevices, methods, stats, MASS, rgl
Suggests: golubEsets
License: GPL (>= 2)

Package: ReactomePA
Version: 1.2.1
Depends: R (>= 2.10), DOSE
Imports: methods, AnnotationDbi, reactome.db, stats4, plyr, igraph,
        qvalue, graphics
Suggests: clusterProfiler, GOSemSim, org.Hs.eg.db
License: GPL-2

Package: ReadqPCR
Version: 1.4.0
Depends: R(>= 2.14.0), Biobase, methods, affy
Imports: Biobase
License: LGPL-3

Package: reb
Version: 1.36.0
Depends: R (>= 2.0), Biobase, idiogram (>= 1.5.3)
License: GPL-2
Archs: i386, x64

Package: RedeR
Version: 1.6.1
Depends: R (>= 2.15), methods, igraph, RCurl, XML
Imports: rJava, XMLRPC
Suggests: PANR, pvclust
License: GPL (>= 2)

Package: REDseq
Version: 1.4.0
Depends: R (>= 2.15.0), BiocGenerics (>= 0.1.0),
        BSgenome.Celegans.UCSC.ce2, multtest, Biostrings, BSgenome,
        ChIPpeakAnno
Imports: BiocGenerics, AnnotationDbi, Biostrings, ChIPpeakAnno,
        graphics, IRanges (>= 1.13.5), multtest, stats, utils
License: GPL (>= 2)

Package: RefPlus
Version: 1.28.0
Depends: R (>= 2.8.0), Biobase (>= 2.1.0), affy (>= 1.20.0), affyPLM
        (>= 1.18.0), preprocessCore (>= 1.4.0)
Suggests: affydata
License: GPL (>= 2)

Package: Repitools
Version: 1.4.2
Depends: R (>= 2.13.0), methods, BiocGenerics (>= 0.1.0), GenomicRanges
        (>= 1.7.8)
Imports: BiocGenerics, IRanges (>= 1.13.5), GenomicRanges, BSgenome,
        gplots, grid, MASS, gsmoothr, edgeR (>= 2.99.2), DNAcopy,
        Ringo, aroma.affymetrix
Suggests: GenomicRanges, IRanges, BSgenome, gplots, grid, MASS,
        gsmoothr, edgeR, DNAcopy, Ringo, aroma.affymetrix, ShortRead,
        BSgenome.Hsapiens.UCSC.hg18
License: LGPL (>= 2)

Package: ReportingTools
Version: 1.0.0
Depends: methods
Imports:
        Biobase,hwriter,Category,GOstats,limma,lattice,AnnotationDbi,edgeR,
        annotate,PFAM.db, GSEABase, BiocGenerics(>= 0.1.6)
Suggests: RUnit
License: Artistic-2.0

Package: ReQON
Version: 1.4.0
Depends: R (>= 2.15.0), Rsamtools, seqbias
Imports: rJava, graphics, stats, utils, grDevices
License: GPL-2

Package: Resourcerer
Version: 1.32.0
Depends: R (>= 1.9.0), Biobase, AnnotationDbi (>= 1.4.0)
Suggests: human.db0, mouse.db0, rat.db0
License: LGPL

Package: rGADEM
Version: 2.6.0
Depends: R (>= 2.11.0), Biostrings, IRanges, BSgenome, methods, seqLogo
Imports: Biostrings, IRanges, methods, graphics, seqLogo
Suggests: BSgenome.Hsapiens.UCSC.hg18
License: Artistic-2.0
Archs: i386, x64

Package: RGalaxy
Version: 1.0.0
Depends: XML, methods, tools, optparse, digest
Imports: BiocGenerics, Biobase, roxygen2
Suggests: RUnit, hgu95av2.db
License: Artistic-2.0

Package: Rgraphviz
Version: 2.2.1
Depends: R (>= 2.6.0), methods, utils, graph, grid
Imports: stats4, graph, graphics, grDevices, grid, methods, utils
Suggests: RUnit, BiocGenerics, XML
License: file LICENSE
Archs: i386, x64

Package: rhdf5
Version: 2.2.0
Depends: methods
Imports: zlibbioc
License: Artistic-2.0
Archs: i386, x64

Package: rHVDM
Version: 1.24.0
Depends: R (>= 2.10), R2HTML (>= 1.5), affy (>= 1.23.4), minpack.lm (>=
        1.0-5), Biobase (>= 2.5.5)
License: GPL-2

Package: Ringo
Version: 1.22.0
Depends: methods, Biobase (>= 1.14.1), RColorBrewer, limma, Matrix,
        grid
Imports: BiocGenerics (>= 0.1.11), genefilter, limma, vsn, stats4
Suggests: rtracklayer (>= 1.3.1), mclust, topGO (>= 1.15.0)
License: Artistic-2.0
Archs: i386, x64

Package: Risa
Version: 1.0.0
Depends: R (>= 2.0.9), Biobase (>= 2.4.0), methods, Rcpp (>= 0.9.13)
Imports: xcms
Suggests: faahKO (>= 1.2.11)
License: LGPL

Package: RLMM
Version: 1.20.0
Depends: R (>= 2.1.0)
Imports: graphics, grDevices, MASS, stats, utils
License: LGPL (>= 2)

Package: Rmagpie
Version: 1.14.0
Depends: R (>= 2.6.1), Biobase (>= 2.5.5)
Imports: Biobase (>= 2.5.5), e1071, graphics, grDevices, kernlab,
        methods, pamr, stats, utils
Suggests: xtable
License: GPL (>= 3)

Package: RMAPPER
Version: 1.8.0
Depends: methods
Suggests: RCurl
License: Artistic-2.0

Package: RMassBank
Version: 1.0.0
Depends: rcdk,yaml,mzR,methods
Imports: XML,RCurl
Suggests: gplots,RMassBankData,xcms
License: Artistic-2.0

Package: RmiR
Version: 1.14.0
Depends: R (>= 2.7.0), RmiR.Hs.miRNA, RSVGTipsDevice
Imports: DBI, methods, stats
Suggests: hgug4112a.db,org.Hs.eg.db
License: Artistic-2.0

Package: RNAinteract
Version: 1.6.0
Depends: R (>= 2.12.0), abind, locfit, Biobase
Imports: RColorBrewer, ICS, ICSNP, cellHTS2, geneplotter, gplots, grid,
        hwriter, lattice, latticeExtra, limma, methods, splots (>=
        1.13.12)
License: Artistic-2.0

Package: RNAither
Version: 2.6.0
Depends: R (>= 2.10), topGO, RankProd, prada
Imports: geneplotter, limma, biomaRt, car, splots, methods
License: Artistic-2.0

Package: ROC
Version: 1.34.0
Depends: R (>= 1.9.0), utils, methods
Suggests: Biobase
License: Artistic-2.0
Archs: i386, x64

Package: Rolexa
Version: 1.14.0
Depends: R (>= 2.9.0), graphics, grDevices, methods, ShortRead
Imports: mclust, Biostrings, graphics, grDevices, IRanges, methods,
        ShortRead, stats
Enhances: fork
License: GPL-2

Package: rols
Version: 1.0.2
Depends: methods
Imports: XMLSchema (>= 0.6.0), SSOAP (>= 0.8.0), Biobase
Suggests: xtable, GO.db, knitr
License: GPL-2

Package: RPA
Version: 1.14.0
Depends: R (>= 2.15.1), affy, affydata, methods, parallel
License: FreeBSD

Package: RpsiXML
Version: 1.18.1
Depends: methods, annotate (>= 1.21.0), graph (>= 1.21.0), Biobase,
        RBGL (>= 1.17.0), XML (>= 2.4.0), hypergraph (>= 1.15.2),
        AnnotationDbi
Suggests: org.Hs.eg.db, org.Mm.eg.db, org.Dm.eg.db, org.Rn.eg.db,
        org.Sc.sgd.db,hom.Hs.inp.db, hom.Mm.inp.db, hom.Dm.inp.db,
        hom.Rn.inp.db, hom.Sc.inp.db,Rgraphviz, ppiStats, ScISI
License: LGPL-3

Package: rqubic
Version: 1.4.0
Depends: methods, Biobase, biclust
Imports: Biobase, biclust
Suggests: RColorBrewer
License: GPL-2
Archs: i386, x64

Package: Rsamtools
Version: 1.10.2
Depends: methods, IRanges (>= 1.15.35), GenomicRanges (>= 1.9.48),
        Biostrings (>= 2.25.6)
Imports: methods, utils, IRanges, GenomicRanges, Biostrings, zlibbioc,
        bitops, BiocGenerics (>= 0.1.3)
LinkingTo: Biostrings, IRanges
Suggests: ShortRead (>= 1.13.19), GenomicFeatures,
        TxDb.Dmelanogaster.UCSC.dm3.ensGene, KEGG.db, RUnit
License: Artistic-2.0 + file LICENSE
Archs: i386, x64

Package: rsbml
Version: 2.16.0
Depends: R (>= 2.6.0), BiocGenerics (>= 0.3.2), methods, utils
Imports: BiocGenerics, graph, utils
License: Artistic-2.0
Archs: i386, x64

Package: RTCA
Version: 1.10.0
Depends: methods,stats,graphics,Biobase,RColorBrewer, gtools
Suggests: xtable
License: LGPL-3

Package: RTopper
Version: 1.4.1
Depends: R (>= 2.11.0), Biobase
Imports: limma, multtest
Suggests: limma, org.Hs.eg.db, KEGG.db, GO.db
License: GPL (>= 3)

Package: rtracklayer
Version: 1.18.2
Depends: R (>= 2.10), methods, GenomicRanges (>= 1.9.6)
Imports: XML (>= 1.98-0), BiocGenerics (>= 0.1.0), IRanges (>=
        1.15.37), GenomicRanges, Biostrings (>= 2.25.6), BSgenome (>=
        1.23.1), zlibbioc, RCurl (>= 1.4-2), Rsamtools (>= 1.7.3)
LinkingTo: IRanges
Suggests: humanStemCell, microRNA (>= 1.1.1), genefilter, limma,
        org.Hs.eg.db, BSgenome.Hsapiens.UCSC.hg19,
        TxDb.Hsapiens.UCSC.hg19.knownGene, hgu133plus2.db
License: Artistic-2.0
Archs: i386, x64

Package: Rtreemix
Version: 1.20.0
Depends: R (>= 2.5.0), methods, graph, Biobase
Imports: methods, graph, Biobase, Hmisc
Suggests: Rgraphviz
License: LGPL
Archs: i386, x64

Package: safe
Version: 2.18.0
Depends: R (>= 2.4.0), Biobase, annotate, methods
Imports: SparseM, GO.db, annotate, AnnotationDbi, survival, Biobase
Suggests: GO.db, GOstats, Rgraphviz, multtest, hu6800.db, survival
License: GPL (>= 2)

Package: sagenhaft
Version: 1.28.0
Depends: R (>= 2.10), SparseM (>= 0.73), methods
Imports: graphics, methods, SparseM, stats, utils
License: GPL (>= 2)

Package: SAGx
Version: 1.32.0
Depends: R (>= 2.5.0), stats, multtest, methods
Imports: Biobase, stats4
Suggests: KEGG.db, hu6800.db, MASS
License: GPL-3
Archs: i386, x64

Package: SamSPECTRAL
Version: 1.12.0
Depends: R (>= 2.10)
Imports: methods
License: GPL (>= 2)
Archs: i386, x64

Package: SBMLR
Version: 1.54.0
Depends: XML, deSolve
License: GPL-2

Package: SCAN.UPC
Version: 1.0.0
Depends: R (>= 2.14.0), Biobase (>= 2.6.0), oligo, Biostrings
Imports: utils, methods
Suggests: pd.hg.u95a
License: MIT

Package: ScISI
Version: 1.30.0
Depends: R (>= 2.10), GO.db, RpsiXML, annotate, apComplex
Imports: AnnotationDbi, GO.db, RpsiXML, annotate, methods,
        org.Sc.sgd.db, utils
Suggests: ppiData, xtable
License: LGPL

Package: segmentSeq
Version: 1.10.1
Depends: R (>= 2.3.0), methods, baySeq (>= 1.11.1), ShortRead,
        GenomicRanges, IRanges
Imports: baySeq, graphics, grDevices, IRanges, methods, utils,
        GenomicRanges
Suggests: snow
License: GPL-3

Package: seqbias
Version: 1.6.0
Depends: R (>= 2.13.0), GenomicRanges (>= 0.1.0), Biostrings (>=
        2.15.0), methods
Imports: zlibbioc
LinkingTo: Rsamtools
Suggests: Rsamtools, ggplot2
License: LGPL-3
Archs: i386, x64

Package: seqLogo
Version: 1.24.0
Depends: methods, grid
License: LGPL (>= 2)

Package: ShortRead
Version: 1.16.4
Depends: methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.4),
        GenomicRanges (>= 1.7.43), Biostrings (>= 2.25.6), lattice,
        Rsamtools (>= 1.7.42), latticeExtra
Imports: BiocGenerics, IRanges, GenomicRanges, Biostrings, Biobase,
        hwriter, Rsamtools, zlibbioc, lattice
LinkingTo: IRanges, Biostrings
Suggests: biomaRt, RUnit, GenomicFeatures, yeastNagalakshmi
Enhances: Rmpi, parallel
License: Artistic-2.0
Archs: i386, x64

Package: sigaR
Version: 1.2.1
Depends: Biobase, CGHbase, methods, mvtnorm, penalized
Imports: corpcor (>= 1.6.2), graphics, igraph, marray, MASS, mvtnorm,
        quadprog, penalized (>= 0.9-39), snowfall, stats
License: GPL (>= 2)

Package: siggenes
Version: 1.32.0
Depends: methods, Biobase, multtest, splines, graphics
Imports: stats4
Suggests: affy, annotate, genefilter, KernSmooth, scrime (>= 1.2.5)
License: LGPL (>= 2)

Package: sigPathway
Version: 1.26.0
Depends: R (>= 2.10)
Suggests: hgu133a.db (>= 1.10.0), XML (>= 1.6-3), AnnotationDbi (>=
        1.3.12)
License: GPL-2
Archs: i386, x64

Package: SIM
Version: 1.28.2
Depends: R (>= 2.4), quantreg
Imports: graphics, stats, globaltest, quantsmooth
Suggests: biomaRt, RColorBrewer
License: GPL (>= 2)
Archs: i386, x64

Package: simpleaffy
Version: 2.34.0
Depends: R (>= 2.0.0), methods, utils, grDevices, graphics, stats,
        BiocGenerics (>= 0.1.12), Biobase, affy (>= 1.33.6),
        genefilter, gcrma
Imports: methods, utils, grDevices, graphics, stats, BiocGenerics,
        Biobase, affy, genefilter, gcrma
License: GPL (>= 2)
Archs: i386, x64

Package: sizepower
Version: 1.28.0
Depends: stats
License: LGPL

Package: SLGI
Version: 1.18.0
Depends: R (>= 2.10), ScISI, lattice
Imports: AnnotationDbi, Biobase, GO.db, ScISI, graphics, lattice,
        methods, stats, BiocGenerics
Suggests: GO.db, org.Sc.sgd.db
License: Artistic-2.0

Package: SLqPCR
Version: 1.24.0
Depends: R(>= 2.4.0)
Imports: stats
Suggests: RColorBrewer
License: GPL (>= 2)

Package: SMAP
Version: 1.22.0
Depends: R (>= 2.10), methods
License: GPL-2
Archs: i386, x64

Package: snapCGH
Version: 1.28.0
Depends: limma, DNAcopy, methods
Imports: aCGH, cluster, DNAcopy, GLAD, graphics, grDevices, limma,
        methods, stats, tilingArray, utils
License: GPL
Archs: i386, x64

Package: snm
Version: 1.6.0
Depends: R(>= 2.12.0), lme4, splines, corpcor
License: LGPL

Package: SNPchip
Version: 2.4.0
Depends: R (>= 2.14.0)
Imports: graphics, lattice, grid, foreach, utils, methods, oligoClasses
        (>= 1.19.30), Biobase, GenomicRanges
Suggests: crlmm, IRanges, RUnit
Enhances: doSNOW, VanillaICE, RColorBrewer
License: LGPL (>= 2)

Package: snpStats
Version: 1.8.2
Depends: R(>= 2.10.0), survival, methods, Matrix
Imports: graphics, grDevices, methods, stats, survival, utils, Matrix,
        BiocGenerics
Suggests: hexbin
License: GPL-3
Archs: i386, x64

Package: spade
Version: 1.6.0
Depends: R (>= 2.11), igraph0
Imports: Biobase, flowCore
Suggests: flowViz
License: GPL-2
Archs: i386, x64

Package: SpeCond
Version: 1.12.0
Depends: R (>= 2.10.0), mclust (>= 3.3.1), Biobase (>= 1.15.13),
        fields, hwriter (>= 1.1), RColorBrewer, methods
License: LGPL (>= 2)

Package: SPIA
Version: 2.8.0
Depends: R (>= 2.10), graphics
Imports: graphics
Suggests: graph, Rgraphviz, KEGGgraph, hgu133plus2.db
License: GPL (>= 2)

Package: spikeLI
Version: 2.18.0
Imports: graphics, grDevices, stats, utils
License: GPL-2

Package: spkTools
Version: 1.14.0
Depends: R (>= 2.7.0), Biobase (>= 2.5.5)
Imports: Biobase (>= 2.5.5), graphics, grDevices, gtools, methods,
        RColorBrewer, stats, utils
Suggests: xtable
License: GPL (>= 2)

Package: splicegear
Version: 1.30.0
Depends: R (>= 2.6.0), methods, Biobase(>= 2.5.5)
Imports: annotate, Biobase, graphics, grDevices, grid, methods, utils,
        XML
License: LGPL

Package: splots
Version: 1.24.0
Imports: grid, RColorBrewer
License: LGPL

Package: spotSegmentation
Version: 1.32.0
Depends: R (>= 2.10), mclust
License: GPL (>= 2)

Package: SQUADD
Version: 1.8.0
Depends: R (>= 2.11.0)
Imports: graphics, grDevices, methods, RColorBrewer, stats, utils
License: GPL (>= 2)

Package: SRAdb
Version: 1.12.1
Depends: RSQLite (>= 0.8-4) , graph, RCurl
Imports: GEOquery
Suggests: Rgraphviz
License: Artistic-2.0

Package: sscore
Version: 1.30.0
Depends: R (>= 1.8.0), affy, affyio
Suggests: affydata
License: GPL (>= 2)

Package: ssize
Version: 1.32.0
Depends: gdata, xtable
License: LGPL

Package: SSPA
Version: 1.14.2
Depends: R (>= 2.8), methods, qvalue
Imports: graphics, limma, methods, stats
Suggests: multtest, quadprog, splines
License: GPL (>= 2)
Archs: i386, x64

Package: staRank
Version: 1.0.0
Depends: methods, cellHTS2, R (>= 2.10)
License: GPL

Package: Starr
Version: 1.14.1
Depends: Ringo, affy, affxparser
Imports: pspline, MASS, zlibbioc
License: Artistic-2.0
Archs: i386, x64

Package: stepNorm
Version: 1.30.0
Depends: R (>= 1.8.0), marray, methods
Imports: marray, MASS, methods, stats
License: LGPL

Package: stepwiseCM
Version: 1.4.0
Depends: R (>= 2.14), randomForest, MAclinical, tspair, pamr, snowfall,
        glmpath, penalized, e1071
License: GPL

Package: Streamer
Version: 1.4.0
Imports: methods, graph, RBGL, parallel, BiocGenerics
Suggests: RUnit, Rsamtools (>= 1.5.53), Rgraphviz
License: Artistic-2.0
Archs: i386, x64

Package: survcomp
Version: 1.8.1
Depends: R (>= 2.10), survival, prodlim
Imports: ipred, SuppDists, KernSmooth, survivalROC, bootstrap, grid,
        rmeta
Suggests: Hmisc, CPE, clinfun, survJamda, Biobase, xtable
License: Artistic-2.0
Archs: i386, x64

Package: sva
Version: 3.4.0
Depends: R (>= 2.8), corpcor, mgcv
Imports: graphics, stats
Suggests: limma,pamr,bladderbatch
License: Artistic-2.0
Archs: i386, x64

Package: synapter
Version: 1.0.1
Depends: R (>= 2.15), methods, MSnbase
Imports: hwriter, tcltk, tcltk2, RColorBrewer, lattice, qvalue,
        multtest, utils, Biobase
Suggests: synapterdata, knitr, xtable
License: GPL-2

Package: TargetSearch
Version: 1.14.1
Depends: R (>= 2.7.0), mzR, methods
Imports: graphics, grDevices, methods, stats, tcltk, utils
Suggests: TargetSearchData
License: GPL (>= 2)
Archs: i386, x64

Package: TDARACNE
Version: 1.8.0
Depends: GenKern, Rgraphviz, Biobase
License: GPL-2

Package: TEQC
Version: 2.6.0
Depends: methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.5),
        Rsamtools, hwriter
Imports: Biobase (>= 2.15.1)
License: GPL (>= 2)

Package: ternarynet
Version: 1.2.0
Depends: R (>= 2.10.0), methods
Imports: utils, igraph
License: GPL (>= 2)
Archs: i386, x64

Package: tigre
Version: 1.12.0
Depends: R (>= 2.11.0), BiocGenerics, Biobase
Imports: methods, BiocGenerics, Biobase, AnnotationDbi, gplots,
        graphics, puma, stats, utils, annotate, DBI, RSQLite
Suggests: puma, drosgenome1.db, annotate, lumi
License: AGPL-3
Archs: i386, x64

Package: tilingArray
Version: 1.36.0
Depends: R (>= 2.11.0), Biobase, methods, pixmap
Imports: strucchange, affy, vsn, genefilter, RColorBrewer, grid, stats4
License: Artistic-2.0
Archs: i386, x64

Package: timecourse
Version: 1.30.0
Depends: R (>= 2.1.1), MASS, methods
Imports: Biobase, graphics, limma (>= 1.8.6), MASS, marray, methods,
        stats
License: LGPL

Package: tkWidgets
Version: 1.36.0
Depends: R (>= 2.0.0), methods, widgetTools (>= 1.1.7), DynDoc (>=
        1.3.0), tools
Suggests: Biobase, hgu95av2
License: Artistic-2.0

Package: topGO
Version: 2.10.0
Depends: R (>= 2.10.0), methods, graph (>= 1.14.0), Biobase (>= 2.0.0),
        GO.db (>= 2.3.0), AnnotationDbi (>= 1.7.19), SparseM (>= 0.73)
Imports: methods, graph, Biobase, SparseM, AnnotationDbi, lattice
Suggests: ALL, hgu95av2.db, hgu133a.db, genefilter, xtable, multtest,
        Rgraphviz, globaltest
License: LGPL

Package: TransView
Version: 1.0.7
Depends: methods,GenomicRanges
Imports: Rsamtools,zlibbioc,gplots,IRanges
LinkingTo: Rsamtools
Suggests: RUnit,pasillaBamSubset
License: GPL-3
Archs: i386, x64

Package: triform
Version: 1.0.0
Depends: R (>= 2.11.0), IRanges, yaml
Imports: IRanges, yaml, BiocGenerics
Suggests: RUnit
License: GPL-2

Package: trigger
Version: 1.4.0
Depends: R (>= 2.14.0), corpcor, qtl
Imports: qvalue, methods, graphics, sva
License: GPL-3
Archs: i386, x64

Package: tspair
Version: 1.16.0
Depends: R (>= 2.10), Biobase (>= 2.4.0)
License: GPL-2
Archs: i386, x64

Package: TSSi
Version: 1.4.0
Depends: R (>= 2.13.2), BiocGenerics (>= 0.3.2)
Imports: BiocGenerics, methods, Hmisc, minqa, stats, Biobase (>=
        0.3.2), plyr, IRanges
Suggests: rtracklayer
Enhances: multicore
License: GPL-3
Archs: i386, x64

Package: TurboNorm
Version: 1.6.2
Depends: R (>= 2.12.0), convert, limma (>= 1.7.0), marray
Imports: stats, grDevices, affy, lattice
Suggests: affydata, affy, lattice
License: LGPL

Package: tweeDEseq
Version: 1.4.1
Depends: R (>= 2.12.0)
Imports: MASS, limma, edgeR, parallel, cqn
Suggests: tweeDEseqCountData, xtable
License: GPL (>= 2)
Archs: i386, x64

Package: twilight
Version: 1.34.0
Depends: R (>= 2.10), splines (>= 2.2.0), stats (>= 2.2.0), Biobase(>=
        1.12.0)
Imports: Biobase, graphics, grDevices, stats
Suggests: golubEsets (>= 1.4.2), vsn (>= 1.7.2)
License: GPL (>= 2)
Archs: i386, x64

Package: TypeInfo
Version: 1.24.0
Depends: methods
Suggests: Biobase
License: BSD

Package: VanillaICE
Version: 1.20.3
Depends: R (>= 2.14.0)
Imports: stats, utils, methods, Biobase, oligoClasses (>=
        1.19.36),lattice, IRanges (>= 1.13.22), grid, msm, crlmm,
        foreach, GenomicRanges, matrixStats
Suggests: genomewidesnp6Crlmm, hapmapsnp6, RColorBrewer, genefilter,
        RSQLite, foreach, RUnit, pd.mapping50k.hind240, SNPchip (>=
        2.2.0)
Enhances: DNAcopy, crlmm
License: LGPL-2
Archs: i386, x64

Package: VariantAnnotation
Version: 1.4.12
Depends: R (>= 2.8.0), methods, GenomicRanges (>= 1.9.56), Rsamtools
        (>= 1.9.4), IRanges (>= 1.15.48)
Imports: methods, BiocGenerics (>= 0.1.0), IRanges, Biobase (>=
        2.15.1), Rsamtools (>= 1.9.4), AnnotationDbi (>= 1.17.11),
        Biostrings (>= 2.25.2), zlibbioc, BSgenome, GenomicFeatures (>=
        1.9.35), DBI
LinkingTo: IRanges, Biostrings, Rsamtools
Suggests: RUnit, BSgenome.Hsapiens.UCSC.hg19,
        TxDb.Hsapiens.UCSC.hg19.knownGene,
        SNPlocs.Hsapiens.dbSNP.20110815, SIFT.Hsapiens.dbSNP132,
        PolyPhen.Hsapiens.dbSNP131, snpStats
License: Artistic-2.0
Archs: i386, x64

Package: vbmp
Version: 1.26.0
Depends: R (>= 2.10)
Suggests: Biobase (>= 2.5.5), statmod
License: GPL (>= 2)

Package: Vega
Version: 1.6.0
Depends: R (>= 2.10)
License: GPL-2
Archs: i386, x64

Package: VegaMC
Version: 2.2.0
Depends: R (>= 2.10.0), biomaRt, Biobase, genoset
Imports: methods
License: GPL-2
Archs: i386, x64

Package: virtualArray
Version: 1.2.1
Depends: R (>= 2.3.0), methods, plyr, preprocessCore
Imports: affy, affyPLM, AnnotationDbi, Biobase, gcrma, GEOquery,
        graphics, methods, reshape2, stats, utils
Suggests: affydata, plier, limma, lumi, org.Hs.eg.db
Enhances: parallel
License: GPL-3

Package: vsn
Version: 3.26.0
Depends: R (>= 2.10), Biobase (>= 2.5.5)
Imports: methods, affy (>= 1.23.4), limma, lattice
Suggests: affydata, hgu95av2cdf
License: Artistic-2.0
Archs: i386, x64

Package: waveTiling
Version: 1.0.0
Depends: oligo, oligoClasses, Biobase, Biostrings, GenomeGraphs
Imports: methods, affy, preprocessCore, GenomicRanges, waveslim,
        IRanges
Suggests: BSgenome, BSgenome.Athaliana.TAIR.TAIR9, waveTilingData,
        pd.atdschip.tiling, TxDb.Athaliana.BioMart.plantsmart12
License: GPL (>= 2)
Archs: i386, x64

Package: weaver
Version: 1.24.0
Depends: R (>= 2.5.0), digest, tools, utils, codetools
Suggests: codetools
License: GPL-2

Package: webbioc
Version: 1.30.0
Depends: R (>= 1.8.0), Biobase, affy, multtest, annaffy, vsn, gcrma,
        qvalue
Imports: multtest, qvalue, stats, utils, BiocInstaller
License: GPL (>= 2)

Package: widgetTools
Version: 1.36.0
Depends: R (>= 2.4.0), methods, utils, tcltk
Suggests: Biobase
License: LGPL

Package: xcms
Version: 1.34.0
Depends: R (>= 1.9.0), methods, mzR (>= 1.1.6)
Suggests: faahKO, msdata, ncdf, multtest, rgl, MassSpecWavelet (>=
        1.5.2), RANN, snow, RUnit
Enhances: Rgraphviz, XML, KEGGSOAP
License: GPL (>= 2)
Archs: i386, x64

Package: XDE
Version: 2.4.1
Depends: R (>= 2.10.0), Biobase (>= 2.5.5), methods, graphics
Imports: Biobase, BiocGenerics, genefilter, graphics, grDevices,
        gtools, MergeMaid, methods, stats, utils, mvtnorm
Suggests: siggenes, genefilter, MASS, RColorBrewer, GeneMeta, RUnit
Enhances: coda
License: LGPL-2
Archs: i386, x64

Package: xmapbridge
Version: 1.16.0
Depends: R (>= 2.0), methods
Suggests: RUnit, RColorBrewer
License: LGPL-3

Package: yaqcaffy
Version: 1.18.0
Depends: simpleaffy (>= 2.19.3), methods
Imports: stats4
Suggests: MAQCsubsetAFX, affydata, xtable, tcltk2, tcltk
License: Artistic-2.0

Package: zlibbioc
Version: 1.4.0
License: Artistic-2.0 + file LICENSE
Archs: i386, x64