Package: a4 Version: 1.4.0 Depends: a4Base, a4Preproc, a4Classif, a4Core, a4Reporting Suggests: MLP, nlcv, ALL License: GPL-3 MD5sum: 2aa2cfaa270ea5bf6bf9c70743b1604c Package: a4Base Version: 1.4.1 Depends: methods, graphics, grid, Biobase, AnnotationDbi, annaffy, mpm, genefilter, limma, multtest, glmnet, a4Preproc, a4Core, gplots Suggests: Cairo, ALL Enhances: gridSVG, JavaGD License: GPL-3 MD5sum: b64669c03ce301aecd6289b4a9b4ea4a Package: a4Classif Version: 1.4.0 Depends: methods, a4Core, a4Preproc, MLInterfaces, ROCR, pamr, glmnet, varSelRF Imports: a4Core Suggests: ALL License: GPL-3 MD5sum: 1aca3f4878411366448ba6d0298b0233 Package: a4Core Version: 1.4.0 Depends: methods, Biobase, glmnet License: GPL-3 MD5sum: 87af49c1604cd71d84bd8d3d3a42eb0d Package: a4Preproc Version: 1.4.0 Depends: methods, AnnotationDbi Suggests: ALL, hgu95av2.db License: GPL-3 MD5sum: de6c2576d247d49b7f2c23269fdfe451 Package: a4Reporting Version: 1.4.0 Depends: methods, annaffy Imports: xtable, utils License: 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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, ppc, x86_64 MD5sum: 6a8275e154759e120808bbe459861866 Package: affxparser Version: 1.28.1 Depends: R (>= 2.6.0) Suggests: R.utils (>= 1.9.11), AffymetrixDataTestFiles License: LGPL (>= 2) Archs: i386, x86_64 MD5sum: 143e6d962f6e350baedb4f674e08388e Package: affy Version: 1.34.0 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, ppc, x86_64 MD5sum: 2dfb5ab78e62f5f8d9b69633309b8195 Package: affycomp Version: 1.32.0 Depends: R (>= 2.13.0), methods, Biobase (>= 2.3.3) Suggests: splines, affycompData License: GPL (>= 2) MD5sum: 3b04bb75c2378040a12973196b165089 Package: AffyCompatible Version: 1.16.0 Depends: R (>= 2.7.0), XML (>= 2.8-1), RCurl (>= 0.8-1), methods Imports: Biostrings License: Artistic-2.0 MD5sum: 42146bbe391df9049a974da83a4cc5b5 Package: affyContam Version: 1.14.0 Depends: R (>= 2.7.0), tools, methods, utils, Biobase, affy, affydata License: Artistic-2.0 MD5sum: 64af7f545610bc8cb8f6b95e10ac1d0a Package: affycoretools Version: 1.28.0 Depends: affy, Biobase, GO.db, KEGG.db Imports: biomaRt, limma, GOstats, annotate, annaffy, genefilter, gcrma, splines, xtable, AnnotationDbi, lattice Suggests: affydata, hgfocuscdf, rgl License: Artistic-2.0 MD5sum: 81879b04792a2ab652bea22b130e0c6d Package: AffyExpress Version: 1.22.0 Depends: R (>= 2.10), affy (>= 1.23.4), limma Suggests: simpleaffy, R2HTML, affyPLM, hgu95av2cdf, hgu95av2, test3cdf, genefilter, estrogen, annaffy, gcrma License: LGPL MD5sum: 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License: Artistic-2.0 MD5sum: 06ce43d4379d332896b2edf961ca6de4 Package: AnnotationFuncs Version: 1.6.0 Depends: R (>= 2.7.0), AnnotationDbi Suggests: org.Bt.eg.db, GO.db, org.Hs.eg.db, hom.Hs.inp.db License: GPL-2 MD5sum: 12d5536c35cdb97686aed3e5233e1953 Package: annotationTools Version: 1.30.0 Imports: Biobase, stats License: GPL MD5sum: 30102ddf949545c3dedbdace5a0c33e6 Package: anota Version: 1.4.0 Depends: qvalue Imports: multtest, qvalue License: GPL-3 MD5sum: 2092ae1c753ebd2543572a8438e17926 Package: apComplex Version: 2.22.0 Depends: R (>= 2.10), graph, RBGL Imports: Rgraphviz, stats, org.Sc.sgd.db License: LGPL MD5sum: baf4a49ac6a40176e6875b2eeb359157 Package: aroma.light Version: 1.24.0 Depends: R.methodsS3 (>= 1.2.1) Suggests: R.oo (>= 1.8.2), R.utils (>= 1.8.2), princurve (>= 1.1-10) License: LGPL (>= 2.1) MD5sum: 4e64c186e06a492caf499ec7e42ff60f Package: ArrayExpress Version: 1.16.0 Depends: R (>= 2.9.0), Biobase (>= 2.4.0) Imports: XML, affy, limma License: Artistic-2.0 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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) MD5sum: ff909ea9bd53f97fdd7962c43115feca Package: BAC Version: 1.16.0 Depends: R (>= 2.10) License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: e2543abeb51c9ae0218e70a1c1bea7c0 Package: BayesPeak Version: 1.8.0 Depends: R (>= 2.10), IRanges Imports: IRanges, graphics Enhances: multicore, snow License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: 47efd351fac653f24fd75a1b6a930da0 Package: baySeq Version: 1.10.0 Depends: R (>= 2.3.0), methods Suggests: snow, edgeR License: GPL-3 MD5sum: 6537c0481e3d716b89ff9a446d753e03 Package: BCRANK Version: 1.18.0 Depends: methods Imports: Biostrings Suggests: seqLogo License: GPL-2 Archs: i386, ppc, x86_64 MD5sum: ca03a818f9ebc102a88940f5dc55f2c5 Package: beadarray Version: 2.6.0 Depends: R (>= 2.13.0), Biobase (>= 2.5.5), methods, ggplot2 Imports: 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stats Suggests: Biobase, IRanges, GenomicRanges, AnnotationDbi, oligoClasses, oligo, affyPLM, flowClust, RUnit License: Artistic-2.0 MD5sum: 4899fe138a90f3e2a7c7ac46db11f7a9 Package: biocGraph Version: 1.18.0 Depends: Rgraphviz, graph Imports: Rgraphviz, geneplotter, graph, BiocGenerics, methods Suggests: fibroEset, geneplotter, hgu95av2.db License: Artistic-2.0 MD5sum: 7d05a744b62101d90c8806add2d7258e Package: BiocInstaller Version: 1.4.9 Depends: R (>= 2.15.0) Suggests: RUnit, BiocGenerics License: Artistic-2.0 MD5sum: 97eac0ea0e80c561581aa83f4819c512 Package: biocViews Version: 1.24.0 Depends: R (>= 2.4.0) Imports: Biobase, graph (>= 1.9.26), methods, RBGL (>= 1.13.5), tools, utils, XML, RCurl Suggests: Biobase License: Artistic-2.0 MD5sum: 4a86eba15119335bbe3bbd15cdff160d Package: bioDist Version: 1.28.0 Depends: R (>= 2.0), methods, Biobase,KernSmooth Suggests: locfit License: Artistic-2.0 MD5sum: 24a27c4f2732b80cae7045e93d90e016 Package: biomaRt Version: 2.12.0 Depends: methods 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IRanges Suggests: BSgenome (>= 1.13.14), BSgenome.Celegans.UCSC.ce2 (>= 1.3.11), BSgenome.Dmelanogaster.UCSC.dm3 (>= 1.3.11), drosophila2probe, hgu95av2probe, hgu133aprobe, GenomicFeatures (>= 1.3.14), hgu95av2cdf, affy, affydata (>= 1.11.5), RUnit Enhances: Rmpi License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: 223bd5b28bae8dcdecfd782716f0826f Package: biovizBase Version: 1.4.2 Depends: R (>= 2.10), methods Imports: methods, 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, ppc, x86_64 MD5sum: 2c047386aef07ce066939c434e1f7078 Package: birta Version: 1.0.0 Depends: limma, MASS, R(>= 2.10), Biobase, methods License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: 12f4b94f9d8f7331813e23a7af3f3d5c Package: BitSeq Version: 1.0.1 Depends: Rsamtools, zlibbioc Imports: IRanges LinkingTo: 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CancerMutationAnalysis Version: 1.0.0 Depends: R (>= 2.10.0), qvalue Imports: AnnotationDbi, limma, methods, stats Suggests: KEGG.db License: GPL (>= 2) + file LICENSE Archs: i386, ppc, x86_64 MD5sum: 902b5d9ec466d25e29ef6a213b362c05 Package: Category Version: 2.22.0 Depends: AnnotationDbi (>= 0.1.15), Biobase (>= 1.15.29), methods Imports: graph, methods, Biobase (>= 1.15.29), AnnotationDbi (>= 0.1.15), RBGL, GSEABase, genefilter, annotate (>= 1.15.6), stats, utils Suggests: EBarrays, ALL, Rgraphviz, RColorBrewer, xtable (>= 1.4-6), hgu95av2.db, Matrix, KEGG.db, GO.db, SNPchip, geneplotter, limma, lattice, graph, Biobase, genefilter, methods License: Artistic-2.0 MD5sum: 91655d1500ca720376d60b8e7cf56362 Package: categoryCompare Version: 1.0.2 Depends: R (>= 2.10), Biobase (>= 1.15.29), AnnotationDbi (>= 0.1.15), Category Imports: Biobase (>= 1.15.29), AnnotationDbi (>= 0.1.15), hwriter, GSEABase, Category (>= 2.21.2), GOstats, annotate, colorspace, graph, RCytoscape (>= 1.5.11) 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flowCore, flowMeans, sfsmisc, rrcov, flowClust, flowMerge, stats Suggests: xtable License: Artistic-2.0 MD5sum: fd5e8d60c2c06b97b094f1383eaf994c Package: flowUtils Version: 1.16.0 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 MD5sum: b3ed5be6189274a5017347967639e388 Package: flowViz Version: 1.20.0 Depends: R (>= 2.7.0), flowCore (>= 1.5.17), lattice Imports: stats4, Biobase, flowCore, graphics, grDevices, grid, KernSmooth, lattice, latticeExtra, MASS, methods, RColorBrewer, stats, utils Suggests: RColorBrewer, IDPmisc,colorspace License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: dd9e2fe4aaadea690be2681f1f25f60a Package: flowWorkspace Version: 1.2.0 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, ppc, x86_64 MD5sum: e6c0c97ba1877d00ea23e8fa7cd27c89 Package: frma Version: 1.8.0 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) MD5sum: 1015f97ad8c18cfba1e5b67566e73ceb Package: frmaTools Version: 1.8.0 Depends: R (>= 2.10.0), affy Imports: Biobase, DBI, methods, preprocessCore, stats, utils Suggests: oligo, frma, affyPLM, hgu133aprobe, hgu133atagprobe, hgu133plus2probe, hgu133acdf, hgu133atagcdf, hgu133plus2cdf, hgu133afrmavecs, frmaExampleData License: GPL (>= 2) MD5sum: fb94d377575a23b982e59c3357dfdc21 Package: gaga Version: 2.2.0 Depends: R (>= 2.8.0), Biobase, coda, EBarrays, mgcv Enhances: multicore License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: 01bba6513ebba8457de0a1601f7c3ec4 Package: gage Version: 2.6.0 Depends: R 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BSgenome.Hsapiens.UCSC.hg19 License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: 1378aec693c1db0c7bd746acf9050158 Package: GEOmetadb Version: 1.16.0 Depends: GEOquery,RSQLite License: Artistic-2.0 MD5sum: 5fc089cf5d3dab4d885e3b48d9e0b9fc Package: GEOquery Version: 2.23.5 Depends: methods, Biobase Imports: XML, RCurl Suggests: limma, RUnit License: GPL-2 MD5sum: f9de22d0a6d69f2a79872b764808ca8e Package: GEOsubmission Version: 1.8.0 Imports: affy, Biobase, utils License: GPL (>= 2) MD5sum: 3c4542454a062a4708b5b67bfdafc30f Package: GEWIST Version: 1.0.0 Depends: R (>= 2.10), car License: GPL-2 MD5sum: c2038059cc3a1d7e84817d0175278e91 Package: GGBase Version: 3.18.0 Depends: R (>= 2.14), methods, snpStats Imports: limma, genefilter, Biobase, BiocGenerics, Matrix, AnnotationDbi License: Artistic-2.0 MD5sum: 21404be0c5cc56a62225cb0b938439fc Package: ggbio Version: 1.4.6 Depends: methods, ggplot2 (>= 0.9) Imports: methods, biovizBase(>= 1.4.2), reshape2, ggplot2(>= 0.9), BiocGenerics, Biobase, IRanges, GenomicRanges, GenomicFeatures, Rsamtools, BSgenome, gridExtra, scales, plyr, VariantAnnotation, Hmisc, rtracklayer Suggests: BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, affyPLM License: Artistic-2.0 MD5sum: d3d4c1717c527e3ee96f4f9174b51d9c Package: GGtools Version: 4.4.0 Depends: R (>= 2.14), stats4, GGBase (>= 3.16.1), IRanges, GenomicRanges, Rsamtools Imports: methods, utils, stats, BiocGenerics, snpStats, ff, AnnotationDbi, Biobase, bit, VariantAnnotation Suggests: GGdata, illuminaHumanv1.db Enhances: MatrixEQTL License: Artistic-2.0 MD5sum: c406f4fb1d5a7d7fdc24b35b66763def Package: girafe Version: 1.8.0 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, ppc, x86_64 MD5sum: 2119d97f5c8fcb609dc96c53d1c3e35d Package: GLAD Version: 2.18.0 Depends: R (>= 2.10) Suggests: aws, tcltk License: GPL-2 Archs: i386, ppc, x86_64 MD5sum: e8d2fe6845368d6aa15df835a2215ab8 Package: GlobalAncova Version: 3.24.0 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, ppc, x86_64 MD5sum: 43c2d60ec36f3203960b83f0719691b2 Package: globaltest Version: 5.10.0 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) MD5sum: 0d152cf70b16e86306b6147906e60689 Package: GOFunction Version: 1.2.0 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) MD5sum: f9a5967b9c833c7abd2b228b6752ee35 Package: goProfiles Version: 1.18.0 Depends: Biobase, AnnotationDbi, GO.db Suggests: org.Hs.eg.db License: GPL-2 MD5sum: 9a23868b4484a30f036b2780f8467563 Package: GOSemSim Version: 1.14.0 Depends: R (>= 2.10) Imports: methods, AnnotationDbi, GO.db, org.Hs.eg.db Suggests: DOSE, clusterProfiler License: GPL-2 MD5sum: df8006a2be210f87c61acf02dbf73713 Package: goseq Version: 1.8.0 Depends: R (>= 2.11.0), BiasedUrn, geneLenDataBase Imports: mgcv, graphics, stats, utils, AnnotationDbi Suggests: GO.db, edgeR, org.Hs.eg.db License: LGPL (>= 2) MD5sum: 5fc14ad91940dff7c031633d6ea080f0 Package: GOstats Version: 2.22.0 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 Suggests: hgu95av2.db (>= 1.13.0), ALL, GO.db (>= 1.13.0), annotate, multtest, genefilter, RColorBrewer, Rgraphviz, xtable, SparseM License: Artistic-2.0 MD5sum: 8a3d6a7fc939ec7ab3f76172156710bb Package: goTools Version: 1.30.0 Depends: GO.db Imports: AnnotationDbi, GO.db, graphics, grDevices Suggests: hgu133a.db License: GPL-2 MD5sum: 63ba2fabccfe13fe3fe085bf58cca22a Package: gpls Version: 1.28.0 Imports: stats Suggests: MASS License: Artistic-2.0 MD5sum: 9408f53b7432d36794c07c0a2becd2b3 Package: gprege Version: 1.0.0 Depends: R (>= 2.8.0), gptk Suggests: spam License: AGPL-3 MD5sum: 14ff757af2f612250f2873a164f5c010 Package: graph Version: 1.34.0 Depends: R (>= 2.10), methods Imports: methods, stats, tools, utils, BiocGenerics (>= 0.1.11) Suggests: SparseM (>= 0.36), XML, RBGL, RUnit, cluster Enhances: Rgraphviz License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: 407123bc7451ee318f2cf559b0379840 Package: GraphAlignment Version: 1.18.0 License: file LICENSE Archs: i386, ppc, x86_64 MD5sum: 29c1a9a5e7ba3df78014879548dac232 Package: GraphAT Version: 1.28.0 Depends: R (>= 2.10), graph, methods Imports: graph, MCMCpack, methods, stats License: LGPL MD5sum: 9514e8b58e955b7604ebb5585416e72e Package: graphite Version: 1.2.0 Depends: R (>= 2.10), graph Imports: AnnotationDbi, graph, graphics, methods, org.Hs.eg.db, stats, utils Suggests: DEGraph (>= 1.4), hgu133plus2.db, RCytoscape (>= 1.2), SPIA (>= 2.2), topologyGSA (>= 1.0) License: AGPL-3 MD5sum: afb553de30e8a0d807126a41fb0622a4 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, ppc, x86_64 MD5sum: 1f5a3a9afd247760ee5a9d24d0814b48 Package: GSEABase Version: 1.18.0 Depends: R (>= 2.6.0), BiocGenerics, Biobase, 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 MD5sum: 03fbf1ee8ec5e59a181d5f5e8593c604 Package: GSEAlm Version: 1.16.0 Depends: Biobase Suggests: GSEABase,Category, multtest, ALL, annotate, hgu95av2.db, genefilter, GOstats, RColorBrewer License: Artistic-2.0 MD5sum: 7f28d0a65f317ef2e957c5f1d219f23c Package: GSRI Version: 2.4.0 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 MD5sum: 6a3c9241b8e91d5981c48f582f745cbc Package: GSVA Version: 1.4.4 Depends: R (>= 2.13.0), methods, GSEABase (>= 1.18.0) Imports: methods, Biobase, GSEABase Suggests: limma, qpgraph, RBGL, graph, Rgraphviz, RColorBrewer, genefilter, mclust, edgeR, GSVAdata Enhances: snow, parallel License: GPL (>= 2) Archs: i386, x86_64 MD5sum: d769d61cb12617fd3e861613247b022b Package: Gviz Version: 1.0.1 Depends: R (>= 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hopach Version: 2.16.0 Depends: R (>= 2.11.0), cluster, Biobase, methods Imports: Biobase, cluster, graphics, grDevices, methods, stats, utils License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: 0324384a9ba8dcf59d967ea28f9dfbd9 Package: HTqPCR Version: 1.10.0 Depends: Biobase, RColorBrewer, limma Imports: affy, Biobase, gplots, graphics, grDevices, limma, methods, RColorBrewer, stats, stats4, utils Suggests: statmod License: Artistic-2.0 MD5sum: f55b4d7c7c09cade1bbeb296c6e8d780 Package: HTSanalyzeR Version: 2.8.3 Depends: R (>= 2.10), igraph0, GSEABase, BioNet, cellHTS2, RankProd, methods Imports: graph, igraph0, GSEABase, BioNet, cellHTS2, AnnotationDbi, biomaRt 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 MD5sum: 5579c1e93df5986bf312886ba86377b1 Package: htSeqTools Version: 1.2.0 Depends: R (>= 2.12.2), methods, BiocGenerics (>= 0.1.0), Biobase, IRanges, methods, MASS, BSgenome, GenomicRanges 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preprocessCore, RSQLite, DBI, AnnotationDbi, MASS, graphics, stats, stats4, methods Suggests: beadarray, limma, vsn, lumiBarnes, lumiHumanAll.db, lumiHumanIDMapping, genefilter, RColorBrewer License: LGPL (>= 2) MD5sum: 195804d0733f85a955336f2e4f42a2b5 Package: LVSmiRNA Version: 1.6.0 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, ppc, x86_64 MD5sum: 9cfb3f6d8dac2529d97cd0c38f4349ae Package: maanova Version: 1.26.0 Depends: R (>= 2.10) Imports: Biobase, graphics, grDevices, methods, stats, utils Suggests: qvalue, snow Enhances: Rmpi License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: 91841226bbe4efb6d56462dc4d0250b7 Package: macat Version: 1.30.0 Depends: Biobase, annotate Suggests: hgu95av2.db, stjudem License: Artistic-2.0 MD5sum: 0632f91639d2fb59749856346f9f2a4a Package: maCorrPlot Version: 1.26.0 Depends: lattice Imports: graphics, grDevices, lattice, 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(>= 2.10), GLAD Imports: GLAD, graphics, grDevices, stats, utils License: GPL-2 Archs: i386, ppc, x86_64 MD5sum: 836fd25c5ef5732bca312caa229bf1c2 Package: manta Version: 1.2.0 Depends: R (>= 1.8.0), methods, edgeR (>= 2.5.13) Imports: Hmisc, caroline(>= 0.6.6) Suggests: RSQLite, plotrix License: Artistic-2.0 MD5sum: dead10b96df1916329aba849ec29ded0 Package: MantelCorr Version: 1.26.0 Depends: R (>= 2.10) Imports: stats License: GPL (>= 2) MD5sum: f02e713da00d2dc095c62841fe96421f Package: marray Version: 1.34.0 Depends: R (>= 2.10.0), limma, methods Suggests: tkWidgets License: LGPL MD5sum: 1f2fa81eda2a3cb76c059c737ea9d7f5 Package: maSigPro Version: 1.28.0 Depends: R (>= 2.3.1), stats, Biobase Imports: Biobase, graphics, grDevices, limma, Mfuzz, stats, utils License: GPL (>= 2) MD5sum: 35f58410a1ccc098edc1a3aed122631a Package: maskBAD Version: 1.0.0 Depends: R (>= 2.10), gcrma (>= 2.27.1), affy Suggests: hgu95av2probe License: GPL (>= 2) MD5sum: aaefa8d4d5b5c08c7804a6d5e3dc90b3 Package: 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BSgenome.Hsapiens.UCSC.hg18, BSgenome.Mmusculus.UCSC.mm9 License: GPL (>= 2) Archs: i386, x86_64 MD5sum: ff3b72e56469becb8394d5f3eddda7f1 Package: MergeMaid Version: 2.28.0 Depends: R (>= 2.2.0), survival, Biobase, MASS, methods License: GPL (>= 2) MD5sum: fc3e8e9d288a53a4932227ca52560044 Package: metaArray Version: 1.34.0 Imports: Biobase, MergeMaid, graphics, stats License: LGPL-2 Archs: i386, ppc, x86_64 MD5sum: 7b59bc17f97dd56bf6f2836fa0786bd4 Package: metahdep Version: 1.14.0 Depends: R (>= 2.10), methods Suggests: affyPLM License: GPL-3 Archs: i386, ppc, x86_64 MD5sum: 43ba14117f580fb072422d9ce0fff59c Package: methVisual Version: 1.8.0 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) MD5sum: cb4f9c67d440c14451c69bbe1642f4e3 Package: methylumi Version: 2.2.0 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 MD5sum: 049bed04d769c0d4d1bfafd2528f5105 Package: Mfuzz Version: 2.14.0 Depends: R (>= 2.5.0), Biobase (>= 2.5.5), e1071 Imports: tcltk, tkWidgets Suggests: marray License: GPL-2 MD5sum: 1f2b9498147de1de03b29a322d39eedb Package: mgsa Version: 1.4.0 Depends: R (>= 2.9.0), methods, gplots Imports: gplots, graphics, stats, utils Suggests: DBI, RSQLite, GO.db License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: 192e7351744713aed0b4dd2663bfe45a Package: MiChip Version: 1.10.0 Depends: R (>= 2.3.0), Biobase Imports: Biobase License: GPL (>= 2) MD5sum: 23dda2ca92d325b6c7bf8dfbea08cd00 Package: microRNA Version: 1.14.0 Depends: R (>= 2.10) Imports: Biostrings (>= 2.11.32) Suggests: Biostrings (>= 2.11.32) Enhances: Rlibstree License: Artistic-2.0 MD5sum: 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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 MD5sum: 26a503200d33a29d6562b0245e0060b6 Package: mosaics Version: 1.4.1 Depends: R (>= 2.11.1), methods, graphics, Rcpp Imports: MASS, splines, lattice, IRanges LinkingTo: Rcpp Suggests: mosaicsExample Enhances: parallel License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: fb4f0b2b3fd26286ee29af9def3fb7b3 Package: motifRG Version: 1.0.0 Depends: R (>= 2.10) Imports: Biostrings, IRanges, seqLogo, parallel, methods, grid,graphics License: Artistic-2.0 MD5sum: 7cf2687e5fa7de4fd2b42917fd990c99 Package: MotIV Version: 1.10.0 Depends: R (>= 2.10), BiocGenerics (>= 0.1.0) Imports: graphics, grid, methods, BiocGenerics, IRanges (>= 1.13.5), lattice, rGADEM, stats, utils Suggests: rtracklayer License: GPL-2 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affxparser (>= 1.27.5), Biobase (>= 2.15.4), Biostrings (>= 2.23.6), BiocGenerics (>= 0.1.14), DBI (>= 0.2-5), ff, graphics, methods, preprocessCore (>= 1.17.7), 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, x86_64 MD5sum: 6a31b1591254a2af16786a39ca0c9826 Package: oligoClasses Version: 1.18.0 Depends: R (>= 2.14) Imports: Biobase (>= 2.15.1), methods, graphics, BiocGenerics (>= 0.1.14), IRanges (>= 1.13.30), 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, VanillaICE, RUnit Enhances: doMC, doMPI, doSNOW, doParallel, doRedis License: GPL (>= 2) MD5sum: 00c4243932f505eb796d0899bf93f295 Package: OLIN Version: 1.34.0 Depends: R (>= 2.10), methods, locfit, marray Imports: graphics, grDevices, limma, marray, methods, stats Suggests: convert License: GPL-2 MD5sum: 84bdcd7e45d509c777c09917f5505ad4 Package: OLINgui Version: 1.30.0 Depends: R (>= 2.0.0), OLIN (>= 1.4.0) Imports: graphics, marray, OLIN, tcltk, tkWidgets, widgetTools License: GPL-2 MD5sum: f19fec5862e33661f4246e1240050949 Package: oneChannelGUI Version: 1.22.12 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, cummeRbund, 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 License: Artistic-2.0 MD5sum: 6a3595e99f9ee4e3d0f90ba9c563b663 Package: ontoCAT Version: 1.8.0 Depends: rJava, methods License: Apache License 2.0 MD5sum: a6b1380ed002ec58e25def8a97a2424f Package: OrderedList Version: 1.28.0 Depends: R (>= 2.1.0), Biobase (>= 1.5.12), twilight (>= 1.9.2), methods Imports: Biobase, graphics, methods, stats, twilight License: GPL (>= 2) MD5sum: c283291bf996e8799a576a7136cdbcae Package: OTUbase Version: 1.6.0 Depends: R (>= 2.9.0), methods, ShortRead (>= 1.4.0), Biobase, vegan Imports: Biostrings, ShortRead, IRanges License: Artistic-2.0 MD5sum: f6af5e80745cc9db399e71c8b0c2892d Package: OutlierD Version: 1.20.0 Depends: R (>= 2.3.0), Biobase, quantreg License: GPL (>= 2) MD5sum: d780b97fe991cca1c48699a3af56e4bb Package: PAnnBuilder Version: 1.20.0 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) MD5sum: e424ecbf91ba79f7b513d05802ef5343 Package: panp Version: 1.26.0 Depends: R (>= 2.10), affy (>= 1.23.4), Biobase (>= 2.5.5) Imports: Biobase, methods, stats, utils License: GPL (>= 2) MD5sum: aea1c1ec4a4ebcbf59612c2cd4e58d3b Package: PANR Version: 1.2.3 Depends: R (>= 2.14), igraph Imports: graphics, grDevices, MASS, methods, pvclust, stats, utils Suggests: snow, RedeR License: Artistic-2.0 MD5sum: e5b66d510d573fd2b495772cafa5ef2b Package: parody Version: 1.14.0 Depends: R (>= 2.5.0), methods, tools, utils License: Artistic-2.0 MD5sum: 1063bf86093aaf71ae351c6530a4e692 Package: pathRender Version: 1.24.0 Depends: graph, Rgraphviz, RColorBrewer, cMAP, AnnotationDbi, methods Suggests: ALL, hgu95av2.db License: LGPL MD5sum: 0e22b1887613bfab5dd90d023a4f1030 Package: PatientGeneSets Version: 1.6.0 Depends: R (>= 2.10.0), qvalue Imports: AnnotationDbi, limma, methods, stats Suggests: KEGG.db License: GPL (>= 2.0) Archs: i386, ppc, x86_64 MD5sum: f5b1ff195bce56789ce50fe5068f84dd Package: pcaGoPromoter Version: 1.0.0 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) MD5sum: c08ef23394f6b39187fccdbd00d569c6 Package: pcaMethods Version: 1.42.0 Depends: Biobase, MASS, pls, methods, Rcpp (>= 0.8.7) Imports: BiocGenerics LinkingTo: Rcpp Suggests: aroma.light License: GPL (>= 3) Archs: i386, ppc, x86_64 MD5sum: fd2dc18aa5f619802b8fffc4758c095a Package: pcot2 Version: 1.24.0 Depends: R (>= 2.0.0), grDevices, Biobase, amap Suggests: multtest, hu6800.db, KEGG.db, mvtnorm License: GPL (>= 2) MD5sum: 0dcedce3b1fe6abd293a19373464a8ee Package: PCpheno Version: 1.18.0 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 MD5sum: c1c4e2065d34653ba734a4e01d147b40 Package: pdInfoBuilder Version: 1.20.0 Depends: R (>= 2.11.0), methods, Biobase (>= 2.5.5), RSQLite (>= 0.7-1), affxparser (>= 1.7.3), oligo (>= 1.9.19) Imports: Biostrings (>= 2.13.50), IRanges (>= 1.3.89) License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: 099222175d17de116e0be477b74b69ca Package: pdmclass Version: 1.28.0 Depends: Biobase (>= 1.4.22), R (>= 1.9.0), fibroEset, mda License: Artistic-2.0 MD5sum: 0f6c3b90e45a47f11c4037350fd8ad3c Package: PGSEA Version: 1.30.0 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 MD5sum: 975b21a0d5e0f277978aacc4b741ffcf Package: pgUtils Version: 1.28.0 Depends: R (>= 1.8.0), methods, RPostgreSQL (>= 0.1) Imports: methods, RPostgreSQL (>= 0.1) License: LGPL (>= 2) MD5sum: e402d12aa839363c03b973526d0710c8 Package: phenoTest Version: 1.4.0 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) MD5sum: 39e87e0d59931da72d409fb40a66be97 Package: phyloseq Version: 1.0.3 Depends: R (>= 2.15.0), methods, ade4 (>= 1.4), ape (>= 2.8), ggplot2 (>= 0.9.2), picante (>= 1.3), reshape (>= 0.8.4) Imports: foreach (>= 1.3), igraph0 (>= 0.5), multtest (>= 2.8), plyr (>= 1.7), RJSONIO (>= 0.98), vegan (>= 2.0) Suggests: genefilter Enhances: doParallel (>= 1.0) License: AGPL-3 MD5sum: 3662de2480b4cb4c31650abfbc43cc94 Package: pickgene Version: 1.28.0 Imports: graphics, grDevices, MASS, stats, utils License: GPL (>= 2) MD5sum: 0bde811662824a2e913191f4adeb805e Package: PICS Version: 1.10.0 Depends: R (>= 2.11.0), BiocGenerics (>= 0.1.3), IRanges (>= 1.13.10), GenomicRanges, BSgenome Imports: methods, BiocGenerics, stats4, IRanges, GenomicRanges, BSgenome, graphics, grDevices, stats Suggests: snowfall, ShortRead, rtracklayer Enhances: multicore License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: 66288662117ac6a4cb69846d9706f384 Package: PING Version: 1.0.0 Depends: R(>= 2.11.0),chipseq Imports: methods, graphics, grDevices, stats, GenomeGraphs, fda , IRanges, GenomicRanges, BSgenome, stats4, BiocGenerics Suggests: snowfall, ShortRead, rtracklayer Enhances: parallel License: Artistic-2.0 Archs: i386, ppc, x86_64 MD5sum: ee113619ba416f13818951b1ab2b2fa5 Package: pint Version: 1.8.0 Depends: mvtnorm, methods, graphics, Matrix, dmt License: FreeBSD MD5sum: 9acfa8b9526277600a1741c64367ed92 Package: pkgDepTools Version: 1.22.0 Depends: methods, graph, RBGL Imports: graph, RBGL Suggests: Biobase, Rgraphviz, RCurl, BiocInstaller License: GPL-2 MD5sum: 5ec174699078e5b9600b658eab899acc Package: plateCore Version: 1.14.0 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 MD5sum: c68e16e2ad749ae44d8cbcdc3c67f11b Package: plgem Version: 1.28.0 Depends: R (>= 2.10), Biobase (>= 2.5.5), MASS Imports: utils License: GPL-2 MD5sum: 4a96e2336410805b0575c1e9d1b41063 Package: plier Version: 1.26.0 Depends: R (>= 2.0), methods Imports: affy, Biobase, methods License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: db82def3dc74d18ee2492ea8bbcdb7b6 Package: PLPE 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Biobase, lokern (>= 1.0.9), multtest, stats, methods, annotate Suggests: quantsmooth, qvalue, samr, limma, caTools, affy, PREDAsampledata Enhances: Rmpi, rsprng License: GPL-2 MD5sum: f1a14c03b9ed4ad8f6e54efe6678f172 Package: predictionet Version: 1.2.2 Depends: igraph0, catnet Imports: penalized Suggests: network, minet, knitr License: Artistic-2.0 Archs: i386, x86_64 MD5sum: 4c70c14aeea030d07d21100554e2e759 Package: preprocessCore Version: 1.18.0 Depends: methods Imports: stats License: LGPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: 70d7c715043ce9b56d3cd15340193c36 Package: PROcess Version: 1.32.0 Depends: Icens Imports: graphics, grDevices, Icens, stats, utils License: Artistic-2.0 MD5sum: 2bdca76ce85fdd0d8b04ffdc2e0502a8 Package: procoil Version: 1.6.0 Depends: R (>= 2.10.1), methods Imports: methods, stats, graphics, utils Suggests: Biostrings License: GPL (>= 2) MD5sum: 51a137d673d965777d0ee4cbf487fcd5 Package: PROMISE Version: 1.8.0 Depends: R (>= 2.11.0), Biobase, GSEABase 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snow, Rgraphviz License: GPL (>= 2) Archs: i386, ppc, x86_64 MD5sum: bdbbaa9bd5d3e539083a6d1802906e00 Package: qrqc Version: 1.10.0 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, ppc, x86_64 MD5sum: 2c176d9d884e26aef22c2df85d33a372 Package: QUALIFIER Version: 1.0.2 Depends: R (>= 2.14.0),reshape,flowWorkspace, Imports: MASS,hwriter,RSVGTipsDevice,lattice,stats4,flowCore,flowViz,methods Enhances: ncdfFlow License: Artistic-2.0 MD5sum: 563371c00c6aadf76f20bf423f16069c Package: quantsmooth Version: 1.22.2 Depends: R(>= 2.10.0), quantreg, grid License: GPL-2 MD5sum: 7f1586bde457bd527ba077164de62f1d Package: qvalue Version: 1.30.0 Imports: graphics, grDevices, stats, tcltk License: LGPL MD5sum: dee496ce5f86fa53287f24ae9a24ea77 Package: r3Cseq Version: 1.2.0 Depends: R (>= 2.14.0), IRanges, 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Depends: R (>= 2.0.0), methods, widgetTools (>= 1.1.7), DynDoc (>= 1.3.0), tools Suggests: Biobase, hgu95av2 License: Artistic-2.0 MD5sum: f65d0b951beb6e369cd4860e869d323c Package: topGO Version: 2.8.0 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 MD5sum: c821499c984d85115f59e1437b4b7edc Package: trigger Version: 1.2.0 Depends: R (>= 2.14.0), corpcor, qtl Imports: qvalue, methods, graphics, sva License: GPL-3 Archs: i386, ppc, x86_64 MD5sum: c4e20594b831b0909f3aba999315782c Package: tspair Version: 1.14.1 Depends: R (>= 2.10), Biobase (>= 2.4.0) License: GPL-2 Archs: i386, ppc, x86_64 MD5sum: b836f3deb8539561da317d8637121169 Package: TSSi Version: 1.2.0 Depends: R (>= 2.13.2) Imports: methods, Hmisc, minqa, stats, Biobase, plyr, IRanges Suggests: rtracklayer Enhances: multicore License: GPL-3 Archs: i386, ppc, x86_64 MD5sum: fd4adf73b7b3fbf260fabdeecd2da4d8 Package: TurboNorm Version: 1.4.0 Depends: R (>= 2.12.0), convert, limma (>= 1.7.0), marray Imports: stats, grDevices, affy, lattice Suggests: affydata, affy, lattice License: LGPL MD5sum: 950f5a5b7330f4df0b88b0784128abfc Package: tweeDEseq Version: 1.2.1 Depends: R (>= 2.12.0) Imports: MASS, limma, edgeR, parallel, cqn Suggests: tweeDEseqCountData, xtable License: GPL (>= 2) Archs: i386, x86_64 MD5sum: ccc393247f20e4672661d08227eaba9e Package: twilight Version: 1.32.0 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, ppc, x86_64 MD5sum: 7b4cc085e02ee3b312f5b2769b472b2f Package: TypeInfo Version: 1.22.0 Depends: methods Suggests: Biobase License: BSD MD5sum: 358b8801455239af4cf8ed29fd6a4ccc Package: VanillaICE Version: 1.18.0 Depends: R (>= 2.14.0) Imports: stats, utils, methods, Biobase, oligoClasses (>= 1.17.36), lattice, IRanges (>= 1.13.22), grid, msm, crlmm (>= 1.13.12), foreach Suggests: genomewidesnp6Crlmm, hapmapsnp6, RColorBrewer, genefilter, RSQLite, foreach, RUnit, pd.mapping50k.hind240, SNPchip (>= 2.0.3) Enhances: DNAcopy, crlmm License: LGPL-2 Archs: i386, ppc, x86_64 MD5sum: 161155a6b886b9b451391925e7a17c35 Package: VariantAnnotation Version: 1.2.11 Depends: R (>= 2.8.0), methods, GenomicRanges (>= 1.8.13), Rsamtools (>= 1.7.41) Imports: methods, BiocGenerics (>= 0.1.0), IRanges (>= 1.13.5), Biobase (>= 2.15.1), Rsamtools (>= 1.7.41), AnnotationDbi (>= 1.17.11), Biostrings (>= 2.23.4), zlibbioc, BSgenome, GenomicFeatures, snpStats, 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 License: Artistic-2.0 Archs: i386, x86_64 MD5sum: 3d8bf37cb1ef07b303588e93642aecda Package: vbmp Version: 1.24.0 Depends: R (>= 2.10) Suggests: Biobase (>= 2.5.5), statmod License: GPL (>= 2) MD5sum: e56a637614f93cd68062ceace29165c0 Package: Vega Version: 1.4.0 Depends: R (>= 2.10) License: GPL-2 Archs: i386, ppc, x86_64 MD5sum: 9acf20f75b9113abaebae9406374ea52 Package: VegaMC Version: 2.0.0 Depends: R (>= 2.10.0), biomaRt, Biobase, genoset Imports: methods License: GPL-2 Archs: i386, ppc, x86_64 MD5sum: ab1d6acc8861cdb4eec4a67003c5d647 Package: virtualArray Version: 1.0.0 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: multicore License: GPL-3 MD5sum: 5e7571ae1a5136560ef53010866c684b Package: vsn Version: 3.24.0 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, ppc, x86_64 MD5sum: be4dafd72741a3c84bf456eb8745282c Package: weaver Version: 1.22.0 Depends: R (>= 2.5.0), digest, tools, utils, codetools Suggests: codetools License: GPL-2 MD5sum: fbdc6b79916794bb95fe64df2f63d1ef Package: webbioc Version: 1.28.0 Depends: R (>= 1.8.0), Biobase, affy, multtest, annaffy, vsn, gcrma, qvalue Imports: Biobase, multtest, qvalue, stats, utils License: GPL (>= 2) MD5sum: e856876533f0849e58849c41ff446d87 Package: widgetTools Version: 1.34.0 Depends: R (>= 2.4.0), methods, utils, tcltk Suggests: Biobase License: LGPL MD5sum: 45074d8a4d48e7c7627023d081112304 Package: xcms Version: 1.32.0 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, ppc, x86_64 MD5sum: 6e67903c35df667857679251f2c93c1c Package: XDE Version: 2.2.0 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 Enhances: coda License: LGPL-2 Archs: i386, ppc, x86_64 MD5sum: a4862910ef7c457b2452d840ca4454af Package: xmapbridge Version: 1.14.0 Depends: R (>= 2.0), methods Suggests: RUnit, RColorBrewer License: LGPL-3 MD5sum: 618e8f2c2839bb86a1fe8c589acaecfd Package: xmapcore Version: 1.10.0 Depends: R (>= 2.8.0), methods, IRanges Imports: DBI, RMySQL (>= 0.6-0), digest, Biobase Suggests: RUnit License: GPL-2 MD5sum: bc52f7bbf1f69e02638a1931abfde4d1 Package: xps Version: 1.16.0 Depends: R (>= 2.6.0), methods Suggests: tools License: GPL (>= 2.0) Archs: i386, ppc, x86_64 MD5sum: 231dd83a80082c9dafa3efe9922d859f Package: yaqcaffy Version: 1.16.1 Depends: simpleaffy (>= 2.19.3), methods Imports: stats4 Suggests: MAQCsubsetAFX, affydata, xtable, tcltk2, tcltk License: Artistic-2.0 MD5sum: 559ce8b12cad44991c637734da4aa10c Package: zlibbioc Version: 1.2.0 License: Artistic-2.0 + file LICENSE Archs: i386, ppc, x86_64 MD5sum: 415e1ca53988640ea486c2b83977428e