Package: ALLMLL Version: 1.2.12 Depends: R (>= 2.10), affy (>= 1.23.4) License: GPL-2 Title: A subset of arrays from a large acute lymphoblastic leukemia (ALL) study Description: This package provides probe-level data for 20 HGU133A and 20 HGU133B arrays which are a subset of arrays from a large ALL study. The data is for the MLL arrays. This data was published in Mary E. Ross, Xiaodong Zhou, Guangchun Song, Sheila A. Shurtleff, Kevin Girtman, W. Kent Williams, Hsi-Che Liu, Rami Mahfouz, Susana C. Raimondi, Noel Lenny, Anami Patel, and James R. Downing (2003) Classification of pediatric acute lymphoblastic leukemia by gene expression profiling Blood 102: 2951-2959 biocViews: ExperimentData, Cancer, Leukemia Author: B. M. Bolstad MD5sum: 7e875cb61d47893310b7642f421c7cc6 source.ver: src/contrib/ALLMLL_1.2.12.tar.gz win.binary.ver: bin/windows/contrib/2.15/ALLMLL_1.2.12.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ALLMLL_1.2.12.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ALL Version: 1.4.12 Depends: R (>= 2.10), Biobase (>= 2.5.5) Suggests: rpart License: Artistic-2.0 Title: A data package Description: Data of T- and B-cell Acute Lymphocytic Leukemia from the Ritz Laboratory at the DFCI (includes Apr 2004 versions) biocViews: ExperimentData, Cancer, Leukemia Author: Xiaochun Li Maintainer: Robert Gentleman MD5sum: e5b45c8bda4591f5a4df9dce49a5f31f source.ver: src/contrib/ALL_1.4.12.tar.gz win.binary.ver: bin/windows/contrib/2.15/ALL_1.4.12.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ALL_1.4.12.tgz vignettes: vignettes/ALL/inst/doc/ALLintro.pdf vignetteTitles: ALL data intro hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: AffymetrixDataTestFiles Version: 0.1.4 Depends: R (>= 2.5.0) License: LGPL-2.1 Title: Affymetrix data files (CEL, CDF, CHP, EXP, PSI) for testing Description: This package contains annotation data files and sample data files of Affymetrix file formats. The files originate from the Affymetrix' Fusion SDK distribution. biocViews: Microarray, OneChannel, AnnotationData, ExperimentData Author: Henrik Bengtsson, James Bullard, Kasper Daniel Hansen Maintainer: Henrik Bengtsson MD5sum: 1465ca5b8e1f733d63cc827152f43c91 source.ver: src/contrib/AffymetrixDataTestFiles_0.1.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/AffymetrixDataTestFiles_0.1.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/AffymetrixDataTestFiles_0.1.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: AmpAffyExample Version: 1.2.10 Depends: R (>= 2.4.0), affy (>= 1.23.4) Suggests: hgu133acdf License: LGPL (>= 2) Title: Example of Amplified Data Description: Six arrays. Three from amplified RNA, three from the typical procedure. biocViews: ExperimentData Author: Rafael A. Irizarry Maintainer: Rafael A. Irizarry MD5sum: fed54c8e73a7e25fbf61977a807b9f22 source.ver: src/contrib/AmpAffyExample_1.2.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/AmpAffyExample_1.2.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/AmpAffyExample_1.2.10.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: BeadArrayUseCases Version: 1.0.8 Imports: beadarray (>= 2.3.18), limma, GEOquery Suggests: Biostrings, GenomicRanges, illuminaHumanv1.db, illuminaHumanv2.db, illuminaHumanv3.db License: GPL-2 Title: Analysing Illumina BeadArray expression data using Bioconductor Description: Example data files and use cases for processing Illumina BeadArray expression data using Bioconductor biocViews: DifferentialExpression, Microarray Author: Mark Dunning, Wei Shi, Andy Lynch, Mike Smith, Matt Ritchie Maintainer: Mike Smith MD5sum: d5664075f5ef3fce16060c40b5478bf9 source.ver: src/contrib/BeadArrayUseCases_1.0.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/BeadArrayUseCases_1.0.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/BeadArrayUseCases_1.0.8.tgz vignettes: vignettes/BeadArrayUseCases/inst/doc/BeadArrayUseCases.pdf, vignettes/BeadArrayUseCases/inst/doc/BeadChipSimple_old.pdf vignetteTitles: BeadArrayUseCases.pdf, BeadChipSimple_old.pdf hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: CCl4 Version: 1.0.12 Depends: R (>= 2.6.0), Biobase (>= 2.5.5), limma License: Artistic-2.0 Title: Carbon Tetrachloride (CCl4) treated hepatocytes Description: NChannelSet for rat hepatocytes treated with Carbon Tetrachloride (CCl4) data from LGC company. biocViews: ExperimentData Author: Audrey Kauffmann, Wolfgang Huber Maintainer: Audrey Kauffmann MD5sum: 5e7fd2a175361e47c51174051e69fbb0 source.ver: src/contrib/CCl4_1.0.12.tar.gz win.binary.ver: bin/windows/contrib/2.15/CCl4_1.0.12.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/CCl4_1.0.12.tgz vignettes: vignettes/CCl4/inst/doc/CCl4.pdf vignetteTitles: CCl4 hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: CLL Version: 1.2.12 Depends: R (>= 2.10), affy (>= 1.23.4), Biobase (>= 2.5.5) License: LGPL Title: A Package for CLL Gene Expression Data Description: The CLL package contains the chronic lymphocytic leukemia (CLL) gene expression data. The CLL data had 24 samples that were either classified as progressive or stable in regards to disease progression. The data came from Dr. Sabina Chiaretti at Division of Hematology, Department of Cellular Biotechnologies and Hematology, University La Sapienza, Rome, Italy and Dr. Jerome Ritz at Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts. biocViews: ExperimentData, Cancer, Leukemia Author: Elizabeth Whalen Maintainer: Robert Gentleman MD5sum: 902a8cce737c014dec155ceed97aaf97 source.ver: src/contrib/CLL_1.2.12.tar.gz win.binary.ver: bin/windows/contrib/2.15/CLL_1.2.12.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/CLL_1.2.12.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: DLBCL Version: 1.3.4 Depends: R(>= 2.11.0), Biobase License: GPL (>=2) Title: Diffuse large B-cell lymphoma expression data Description: This package provides additional expression data on diffuse large B-cell lymphomas for the BioNet package. biocViews: ExperimentData, Cancer Author: Marcus Dittrich and Daniela Beisser Maintainer: Marcus Dittrich URL: http://bionet.bioapps.biozentrum.uni-wuerzburg.de/ MD5sum: 2284980eb054e8cd4376047b2c0eabdd source.ver: src/contrib/DLBCL_1.3.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/DLBCL_1.3.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/DLBCL_1.3.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ENCODEFig4Band4D Version: 1.0.2 Imports: Biobase, earth, randomForest License: Artistic-2.0 # modify as desired Title: Data and code package to reproduce Figure panels 4B and 4D from the ENCODE (2012) paper Description: The package provides the data and the code needed to reproduce Figure panels 4B and 4D from the ENCODE (2012) paper. The data are provided as R data objects and are documented by manual pages. The code to reproduce the figure panels is presented in the package vignette. Author: Chao Cheng and Wolfgang Huber Maintainer: Wolfgang Huber MD5sum: d6542082ddbd1f638becc059334bb94f source.ver: src/contrib/ENCODEFig4Band4D_1.0.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/ENCODEFig4Band4D_1.0.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ENCODEFig4Band4D_1.0.2.tgz vignettes: vignettes/ENCODEFig4Band4D/inst/doc/ENCODEFig4Band4D.pdf vignetteTitles: Figure panels 4b and 4d from the ENCODE (2012) paper hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: EatonEtAlChIPseq Version: 0.0.7 Depends: GenomicRanges (>= 1.5.42), ShortRead, rtracklayer License: Artistic 2.0 Title: ChIP-seq data of ORC-binding sites in Yeast excerpted from Eaton et al. 2010 Description: ChIP-seq analysis subset from "Conserved nucleosome positioning defines replication origins" (PMID 20351051) biocViews: ExperimentData, Yeast, ChIPseqData Author: Patrick Aboyoun Maintainer: Patrick Aboyoun MD5sum: 252958ade4d7309af90e1ecf5eb7b00b source.ver: src/contrib/EatonEtAlChIPseq_0.0.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/EatonEtAlChIPseq_0.0.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/EatonEtAlChIPseq_0.0.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: FunciSNP.data Version: 0.99.0 Depends: R (>= 2.14.0) Imports: rtracklayer License: GPL-3 Title: Various data sets for use with the FunciSNP package Description: Data sets needed for FunciSNP to integrate information from GWAS, 1000genomes and chromatin feature, in order to identify functional SNP in coding or non-coding regions. biocViews: Infrastructure, DataRepresentation, DataImport, SequenceMatching, Annotation Author: Simon G. Coetzee and Houtan Noushmehr, PhD Maintainer: Simon G. Coetzee URL: http://coetzeeseq.usc.edu/publication/Coetzee_SG_et_al_2012/ MD5sum: 18fb4c0693e8ced35394d3b3d6b09c4f source.ver: src/contrib/FunciSNP.data_0.99.0.tar.gz win.binary.ver: bin/windows/contrib/2.15/FunciSNP.data_0.99.0.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/FunciSNP.data_0.99.0.tgz vignettes: vignettes/FunciSNP.data/inst/doc/FunciSNP.data.pdf vignetteTitles: FunciSNP Vignette hasREADME: FALSE hasNEWS: TRUE hasINSTALL: FALSE hasLICENSE: FALSE Package: GGdata Version: 1.0.19 Depends: R (>= 2.12.0), methods, Biobase (>= 2.5.5), GGBase, snpStats, illuminaHumanv1.db, AnnotationDbi Enhances: GGtools License: LGPL Title: all 90 hapmap CEU samples, 47K expression, 4mm SNP Description: data exemplars dealing with hapmap SNP reports, GWAS, etc. biocViews: ExperimentData, HapMap Author: VJ Carey Maintainer: VJ Carey MD5sum: 03fc8559e15d2ae5d4ba3715d8b41530 source.ver: src/contrib/GGdata_1.0.19.tar.gz win.binary.ver: bin/windows/contrib/2.15/GGdata_1.0.19.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/GGdata_1.0.19.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE dependsOnMe: ggtut suggestsMe: encoDnaseI Package: GSVAdata Version: 0.99.8 Depends: R (>= 2.10), Biobase, GSEABase, hgu95a.db License: GPL (>= 2) Title: Data employed in the vignette of the GSVA package Description: This package stores the data employed in the vignette of the GSVA package. These data belong to the following publications: Armstrong et al. Nat Genet 30:41-47, 2002; Cahoy et al. J Neurosci 28:264-278, 2008; Carrel and Willard, Nature, 434:400-404, 2005; Huang et al. PNAS, 104:9758-9763, 2007; Pickrell et al. Nature, 464:768-722, 2010; Skaletsky et al. Nature, 423:825-837; Verhaak et al. Cancer Cell 17:98-110, 2010 biocViews: ExperimentData, RNAseqData, RNAExpressionData, Cancer, Leukemia Author: Robert Castelo Maintainer: Robert Castelo MD5sum: 45a5a4012b2b1ad313d79fa23db2d191 source.ver: src/contrib/GSVAdata_0.99.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/GSVAdata_0.99.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/GSVAdata_0.99.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: GWASdata Version: 1.0.5 Depends: GWASTools License: Artistic-2.0 Title: Data used in the examples and vignettes of the GWASTools package Description: Selected Affymetrix and Illlumina SNP data for HapMap subjects. Data provided by the Center for Inherited Disease Research at Johns Hopkins University and the Broad Institute of MIT and Harvard University. biocViews: ExperimentData, SNP, Microarray Author: Stephanie Gogarten Maintainer: Stephanie Gogarten MD5sum: 107c36c27ef6f24f58c99f9aaa974172 source.ver: src/contrib/GWASdata_1.0.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/GWASdata_1.0.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/GWASdata_1.0.5.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: HEEBOdata Version: 1.0.3 License: LGPL Title: HEEBO set and HEEBO controls. Description: R objects describing the HEEBO oligo set. biocViews: ExperimentData Author: Agnes Paquet Maintainer: Agnes Paquet URL: http://alizadehlab.stanford.edu/ http://arrays.ucsf.edu/ MD5sum: e78d3a2ce93c8bb3601adc7d3dadbdac source.ver: src/contrib/HEEBOdata_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/HEEBOdata_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/HEEBOdata_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: HIVcDNAvantWout03 Version: 1.2.6 License: GPL (>= 2) Title: T cell line infections with HIV-1 LAI (BRU) Description: The expression levels of approximately 4600 cellular RNA transcripts were assessed in CD4+ T cell lines at different times after infection with HIV-1BRU using DNA microarrays. This data corresponds to the first block of a 12 block array image (001030_08_1.GEL) in the first data set (2000095918 A) in the first experiment (CEM LAI vs HI-LAI 24hr). There are two data sets, which are part of a dye-swap experiment with replicates, representing the Cy3 (green) absorption intensities for channel 1 (hiv1raw) and the Cy5 (red) absorption intensities for channel 2 (hiv2raw). biocViews: ExperimentData, HIV Author: Dr. Angelique van't Wout, Department of Microbiology, University of Washington Maintainer: Chris Fraley URL: http://expression.microslu.washington.edu/expression/vantwoutjvi2002.html MD5sum: 17787d5713adda442283498e31e1ee2b source.ver: src/contrib/HIVcDNAvantWout03_1.2.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/HIVcDNAvantWout03_1.2.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/HIVcDNAvantWout03_1.2.6.tgz vignettes: vignettes/HIVcDNAvantWout03/inst/doc/hivData.pdf vignetteTitles: hivData.pdf hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ITALICSData Version: 2.0.5 Depends: R (>= 2.0.0) License: GPL Title: ITALICSData Description: Data needed to use the ITALICS package biocViews: ExperimentData Author: Guillem Rigaill Maintainer: Guillem Rigaill URL: http://bioinfo.curie.fr MD5sum: 2e409a9feb8460b96630e87ac59d5d17 source.ver: src/contrib/ITALICSData_2.0.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/ITALICSData_2.0.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ITALICSData_2.0.5.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: IlluminaHumanMethylation450kmanifest Version: 0.2.1 Depends: R (>= 2.13.0), minfi License: Artistic-2.0 Title: Annotation for Illumina's 450k methylation arrays Description: Manifest for Illumina's 450k array data biocViews: IlluminaChip, Homo_sapiens, DNAMethylation Author: Kasper Daniel Hansen, Martin Aryee Maintainer: Kasper Daniel Hansen MD5sum: 06fa5d5e2ca78d14af9de7fc6ca95774 source.ver: src/contrib/IlluminaHumanMethylation450kmanifest_0.2.1.tar.gz win.binary.ver: bin/windows/contrib/2.15/IlluminaHumanMethylation450kmanifest_0.2.1.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/IlluminaHumanMethylation450kmanifest_0.2.1.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE dependsOnMe: minfiData Package: Iyer517 Version: 1.4.10 Depends: Biobase (>= 2.5.5) License: Artistic-2.0 Title: exprSets for Iyer, Eisen et all 1999 Science paper Description: representation of public Iyer data from http://genome-www.stanford.edu/serum/clusters.html biocViews: ExperimentData Author: Vishy Iyer Maintainer: Vince Carey MD5sum: f8648bf32dfd65126793d4675d499bf8 source.ver: src/contrib/Iyer517_1.4.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/Iyer517_1.4.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/Iyer517_1.4.10.tgz vignettes: vignettes/Iyer517/inst/doc/Iyer517.pdf vignetteTitles: Iyer517 hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: LiebermanAidenHiC2009 Version: 0.1.12 Depends: KernSmooth, IRanges License: LGPL Title: Selected data from the HiC paper of E. Lieberman-Aiden et al. in Science (2009) Description: This package provides data that were presented in the article "Comprehensive mapping of long-range interactions reveals folding principles of the human genome", Science 2009 Oct 9;326(5950):289-93. PMID: 19815776 biocViews: ExperimentData Author: Wolfgang Huber, Felix Klein Maintainer: Felix Klein MD5sum: 28c8c165f7f976f38152e9ef8773d3d1 source.ver: src/contrib/LiebermanAidenHiC2009_0.1.12.tar.gz win.binary.ver: bin/windows/contrib/2.15/LiebermanAidenHiC2009_0.1.12.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/LiebermanAidenHiC2009_0.1.12.tgz vignettes: vignettes/LiebermanAidenHiC2009/inst/doc/LiebermanAidenHiC2009.pdf vignetteTitles: Exploration of HiC data hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: MAQCsubsetAFX Version: 1.0.7 Depends: affy (>= 1.23.4), Biobase (>= 2.5.5) License: Artistic-2.0 Title: MAQC data subset for the Affymetrix platform Description: MAQC data subset for the Affymetrix platform biocViews: Microarray, ExperimentData Author: Laurent Gatto Maintainer: Laurent Gatto MD5sum: fdc46a2f44980eacf9e8f9d570f60aa8 source.ver: src/contrib/MAQCsubsetAFX_1.0.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/MAQCsubsetAFX_1.0.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/MAQCsubsetAFX_1.0.7.tgz vignettes: vignettes/MAQCsubsetAFX/inst/doc/MAQCsubsetAFX.pdf vignetteTitles: MAQCsubsetAFX: MAQC data subset for the Affymetrix platform hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: MAQCsubsetILM Version: 1.0.6 Depends: Biobase (>= 2.5.5), lumi License: Artistic-2.0 Title: MAQC data subset for the Illumina platform Description: MAQC data subset for the Illumina platform biocViews: Microarray, ExperimentData Author: Laurent Gatto Maintainer: Laurent Gatto MD5sum: 547b5e0cc8bedf4d8588bced381b62be source.ver: src/contrib/MAQCsubsetILM_1.0.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/MAQCsubsetILM_1.0.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/MAQCsubsetILM_1.0.6.tgz vignettes: vignettes/MAQCsubsetILM/inst/doc/MAQCsubsetILM.pdf vignetteTitles: MAQCsubsetILM: MAQC data subset for the Illumina platform hasREADME: FALSE hasNEWS: TRUE hasINSTALL: FALSE hasLICENSE: FALSE Package: MAQCsubset Version: 1.0.25 Depends: R (>= 2.10.0), affy (>= 1.23.4), Biobase (>= 2.5.5), lumi, methods Suggests: genefilter, codelink License: Artistic-2.0 Title: Experimental Data Package: MAQCsubset Description: Data Package automatically created on Sun Nov 19 15:59:29 2006. biocViews: ExperimentData Author: VJ Carey Maintainer: VJ Carey MD5sum: b025b72fd0cd32c94e26ed8b47ba712d source.ver: src/contrib/MAQCsubset_1.0.25.tar.gz win.binary.ver: bin/windows/contrib/2.15/MAQCsubset_1.0.25.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/MAQCsubset_1.0.25.tgz vignettes: vignettes/MAQCsubset/inst/doc/maqcNotes.pdf vignetteTitles: MAQC notes hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: MEEBOdata Version: 1.0.3 License: LGPL Title: MEEBO set and MEEBO controls. Description: R objects describing the MEEBO set. biocViews: ExperimentData Author: Agnes Paquet Maintainer: Agnes Paquet URL: http://alizadehlab.stanford.edu/ http://arrays.ucsf.edu/ MD5sum: 068a959e43fb4b377ff1888f7d736679 source.ver: src/contrib/MEEBOdata_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/MEEBOdata_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/MEEBOdata_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: Mulder2012 Version: 0.2.1 Depends: R (>= 2.14), org.Hs.eg.db, KEGG.db Imports: igraph, HTSanalyzeR, PANR, RedeR, pvclust, MASS Suggests: snow License: Artistic-2.0 Title: Predicting functional networks and modules of chromatin factors controlling adult stem cell fate from RNA interference screens Description: This package provides functions to reproduce results and figures in Mulder K. et. al. published in Nature Cell Biology 2012 and Wang X. et. al. published in PLoS Computational Biology 2012. biocViews: Bioinformatics Author: Xin Wang , Florian Markowetz Maintainer: Xin Wang MD5sum: 4bfeaa94dacc0ad3a032c571d15aae99 source.ver: src/contrib/Mulder2012_0.2.1.tar.gz win.binary.ver: bin/windows/contrib/2.15/Mulder2012_0.2.1.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/Mulder2012_0.2.1.tgz vignettes: vignettes/Mulder2012/inst/doc/Arora2010_PAN.pdf, vignettes/Mulder2012/inst/doc/Arora2010_sigMod.pdf, vignettes/Mulder2012/inst/doc/Mulder2012-Vignette.pdf, vignettes/Mulder2012/inst/doc/Mulder2012_PAN.pdf, vignettes/Mulder2012/inst/doc/Mulder2012_enrich.pdf, vignettes/Mulder2012/inst/doc/Mulder2012_sigMod.pdf vignetteTitles: Arora2010_PAN.pdf, Arora2010_sigMod.pdf, Main vignette:Posterior association network and enriched functional gene modules inferred from rich phenotypes of gene perturbations, Mulder2012_PAN.pdf, Mulder2012_enrich.pdf, Mulder2012_sigMod.pdf hasREADME: FALSE hasNEWS: TRUE hasINSTALL: FALSE hasLICENSE: FALSE Package: NCIgraphData Version: 0.99.4 Depends: R (>= 2.10.0) Suggests: Rgraphviz License: GPL-3 Title: Data for the NCIgraph software package Description: Provides pathways from the NCI Pathways Database as R graph objects biocViews: Bioinformatics, GraphsAndNetworks Author: Laurent Jacob Maintainer: Laurent Jacob MD5sum: 724fa13b9f192015a01eb400f40061d4 source.ver: src/contrib/NCIgraphData_0.99.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/NCIgraphData_0.99.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/NCIgraphData_0.99.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: Neve2006 Version: 0.1.14 Depends: R (>= 2.14.0), tools, methods, utils, Biobase (>= 1.14.0), hgu133a.db, annotate License: Artistic-2.0 Title: expression and CGH data on breast cancer cell lines Description: Experimental organization of combined expression and CGH data biocViews: ExperimentData, Cancer, Breast Author: M. Neve et al. in Gray Lab at LBL Maintainer: VJ Carey MD5sum: 8f7095f375002b562950dbcbbebe3e20 source.ver: src/contrib/Neve2006_0.1.14.tar.gz win.binary.ver: bin/windows/contrib/2.15/Neve2006_0.1.14.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/Neve2006_0.1.14.tgz vignettes: vignettes/Neve2006/inst/doc/neve06notes.pdf vignetteTitles: Neve 2006: combined CGH and expression data hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: PREDAsampledata Version: 0.2.5 Depends: R (>= 2.9.0), methods, PREDA, Biobase, affy, annotate, gahgu133plus2.db, gahgu133plus2cdf Suggests: hgu133plus2.db, hgu133plus2cdf License: Artistic-2.0 Title: expression and copy number data on clear cell renal carcinoma samples Description: Sample data for PREDA package. (annotations objects synchronized with GeneAnnot custom CDFs version 2.2.0) biocViews: ExperimentData, Cancer Author: I. Cifola et al. in Cristina Battaglia Lab, University of Milan Maintainer: Francesco Ferrari MD5sum: 6d464d9306e47a1b153cee7638bca54a source.ver: src/contrib/PREDAsampledata_0.2.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/PREDAsampledata_0.2.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/PREDAsampledata_0.2.5.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ProData Version: 1.0.6 Depends: R (>= 2.4.0), Biobase (>= 2.5.5) License: GPL Title: SELDI-TOF data of Breast cancer samples Description: A data package of SELDI-TOF protein mass spectrometry data of 167 breast cancer and normal samples. biocViews: ExperimentData, Cancer, Breast Author: Xiaochun Li Maintainer: Xiaochun Li MD5sum: b13b1cff7bcb41ac24aa1cd2a65f0cc7 source.ver: src/contrib/ProData_1.0.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/ProData_1.0.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ProData_1.0.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: RNAinteractMAPK Version: 1.0.6 Depends: R (>= 2.12.0), fields, sparseLDA, RNAinteract Imports: grid, gdata, crossdes, MASS, genefilter Suggests: qvalue, lattice License: Artistic-2.0 Title: Mapping of Signalling Networks through Synthetic Genetic Interaction Analysis by RNAi Description: This package includes all data used in the paper -Mapping of Signalling Networks through Synthetic Genetic Interaction Analysis by RNAi- by Horn, Sandmann, Fischer et al.., Nat. Methods, 2011. The package vignette shows the R code to reproduce all figures in the paper. biocViews: ExperimentData Author: Bernd Fischer Maintainer: Bernd Fischer MD5sum: 1cd791e71a492b4fbebaf4c447a612c0 source.ver: src/contrib/RNAinteractMAPK_1.0.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/RNAinteractMAPK_1.0.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/RNAinteractMAPK_1.0.6.tgz vignettes: vignettes/RNAinteractMAPK/inst/doc/RNAinteractMAPK.pdf vignetteTitles: RNAinteractMAPK hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: RnaSeqTutorial Version: 0.0.10 Depends: R (>= 2.15.0), methods, easyRNASeq Suggests: Rsamtools, ShortRead, BSgenome.Dmelanogaster.UCSC.dm3, GenomicRanges, biomaRt, genomeIntervals License: Artistic-2.0 Title: RNA-Seq Tutorial (EBI Cambridge UK, October 2011) Description: A selection of RNA-Seq data to get familiar with the related Bioconductor core packages and the easyRNASeq package. biocViews: ExperimentData, RNAseqData Author: Nicolas Delhomme, Ismael Padioleau Maintainer: Nicolas Delhomme MD5sum: 72b1ce21a786ef84074862b1291f3837 source.ver: src/contrib/RnaSeqTutorial_0.0.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/RnaSeqTutorial_0.0.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/RnaSeqTutorial_0.0.10.tgz vignettes: vignettes/RnaSeqTutorial/inst/doc/RnaSeqTutorial.pdf vignetteTitles: RNA-Seq Tutorial hasREADME: FALSE hasNEWS: TRUE hasINSTALL: FALSE hasLICENSE: FALSE Package: SNAData Version: 1.8.4 Depends: R (>= 2.4.0), graph Suggests: Rgraphviz License: LGPL Title: Social Networks Analysis Data Examples Description: Data from Wasserman & Faust (1999) "Social Network Analysis" biocViews: ExperimentData Author: Denise Scholtens Maintainer: Denise Scholtens MD5sum: fb2241c73a2e45c011931ba99d25ac97 source.ver: src/contrib/SNAData_1.8.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/SNAData_1.8.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/SNAData_1.8.4.tgz vignettes: vignettes/SNAData/inst/doc/SNAData.pdf vignetteTitles: SNAData hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: SpikeInSubset Version: 1.2.11 Depends: R (>= 2.4.0), Biobase (>= 2.5.5), affy (>= 1.23.4) License: LGPL Title: Part of Affymetrix's Spike-In Experiment Data Description: Includes probe-level and expression data for the HGU133 and HGU95 spike-in experiments biocViews: ExperimentData Author: Rafael Irizarry and Zhijin Wu Maintainer: Rafael A. Irizarry MD5sum: f67ffb587eae4673c953fbf286ff3099 source.ver: src/contrib/SpikeInSubset_1.2.11.tar.gz win.binary.ver: bin/windows/contrib/2.15/SpikeInSubset_1.2.11.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/SpikeInSubset_1.2.11.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: SpikeIn Version: 1.4.8 Depends: R (>= 1.6), affy (>= 1.23.4) License: Artistic-2.0 Title: Affymetrix Spike-In Experiment Data Description: Contains the HGU133 and HGU95 spikein experiment data. biocViews: ExperimentData Author: Rafael Irizarry Maintainer: Rafael A. Irizarry MD5sum: e69578b5269bf30742f0fd7711f91541 source.ver: src/contrib/SpikeIn_1.4.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/SpikeIn_1.4.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/SpikeIn_1.4.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: TCGAMethylation450k Version: 0.99.2 License: GPL-2 Title: The Cancer Genome Atlas Illumina 450k methylation example data Description: The Cancer Genome Atlas (TCGA) is applying genomics technologies to over 20 different types of cancer. This package contains a small set of 450k array data in idat format. Author: Sean Davis Maintainer: Sean Davis MD5sum: fd9304e2738697d557e467e83311c30f source.ver: src/contrib/TCGAMethylation450k_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/TCGAMethylation450k_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/TCGAMethylation450k_0.99.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: TargetSearchData Version: 1.0.6 Depends: TargetSearch License: GPL (>= 2) Title: Example GC-MS data for TargetSearch Package Description: This package provides example GC-MS data for TargetSearch Package. biocViews: ExperimentData Author: Alvaro Cuadros-Inostroza, Henning Redestig, Matt Hannah Maintainer: Alvaro Cuadros-Inostroza Henning Redestig , Matt Hannah MD5sum: edd8ba0a77373d799ca5d1134f34fdd4 source.ver: src/contrib/TargetSearchData_1.0.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/TargetSearchData_1.0.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/TargetSearchData_1.0.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: XhybCasneuf Version: 1.0.9 Depends: R (>= 2.4.0), affy , ath1121501cdf , tinesath1cdf , RColorBrewer , methods, grid License: Artistic-2.0 Title: EBI/PSB cross-hybridisation study package Description: Cross-hybridisation study on the ATH1 Affymetrix GeneChip biocViews: ExperimentData Author: Tineke Casneuf Maintainer: Tineke Casneuf MD5sum: 99ee54b36243738800cb3d9ce62e5636 source.ver: src/contrib/XhybCasneuf_1.0.9.tar.gz win.binary.ver: bin/windows/contrib/2.15/XhybCasneuf_1.0.9.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/XhybCasneuf_1.0.9.tgz vignettes: vignettes/XhybCasneuf/inst/doc/Xhyb.pdf vignetteTitles: Xhyb hasREADME: TRUE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: affycompData Version: 1.1.3 Depends: R (>= 2.13.0), methods, Biobase (>= 2.3.3), affycomp License: GPL (>= 2) Title: affycomp data Description: Data needed by the affycomp package. biocViews: OneChannel, Microarray, Preprocessing Author: Rafael A. Irizarry and Zhijin Wu with contributions from Simon Cawley Maintainer: Harris Jaffee MD5sum: 22e28a53cac6eb7dfae515f39e5562cc source.ver: src/contrib/affycompData_1.1.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/affycompData_1.1.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/affycompData_1.1.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: affydata Version: 1.11.16 Depends: R (>= 2.4.0), affy (>= 1.23.4) Imports: methods Suggests: hgu95av2cdf, hgu133acdf License: GPL (>= 2) Title: Affymetrix Data for Demonstration Purpose Description: Example datasets of a slightly large size. They represent 'real world examples', unlike the artificial examples included in the package affy. biocViews: ExperimentData, OneChannel, Microarray Author: Laurent Gautier Maintainer: Harris Jaffee MD5sum: c91b811a7d3c7f746df2c02f414e4274 source.ver: src/contrib/affydata_1.11.16.tar.gz win.binary.ver: bin/windows/contrib/2.15/affydata_1.11.16.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/affydata_1.11.16.tgz vignettes: vignettes/affydata/inst/doc/affydata.pdf vignetteTitles: affydata primer hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: beadarrayExampleData Version: 1.0.4 Depends: R (>= 2.13.0), Biobase (>= 2.5.5), methods, beadarray (>= 2.0.0) License: GPL-2 Title: Example data for the beadarray package Description: An small dataset that can be used to run examples from the beadarray vignette and examples biocViews: Microarray, OneChannel, QualityControl, Preprocessing, ExperimentData Author: Mark Dunning Maintainer: Mark Dunning MD5sum: dc4e67a1d27c8d930c5f9fac84652ac0 source.ver: src/contrib/beadarrayExampleData_1.0.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/beadarrayExampleData_1.0.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/beadarrayExampleData_1.0.4.tgz vignettes: vignettes/beadarrayExampleData/inst/doc/beadarrayExampleData.pdf vignetteTitles: beadarrayExampleData: example data for the beadarray package hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: beta7 Version: 1.0.3 Depends: R (>= 2.4.0), marray License: LGPL Title: Rodriguez et al. (2004) Differential Gene Expression by Memory/Effector T Helper Cells Bearing the Gut-Homing Receptor Integrin alpha4 beta7. Description: Data from 6 gpr files aims to identify differential expressed genes between the beta 7+ and beta 7- memory T helper cells. biocViews: ExperimentData Author: Jean Yang Maintainer: Jean Yang MD5sum: 41702680fc64e2a6973aca5f464cd3aa source.ver: src/contrib/beta7_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/beta7_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/beta7_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: bladderbatch Version: 1.0.3 Depends: Biobase License: Artistic-2.0 Title: Bladder gene expression data illustrating batch effects Description: This package contains microarray gene expression data on 57 bladder samples from 5 batches. The data are used as an illustrative example for the sva package. biocViews: ExperimentData,Cancer,RNAExpressionData Author: Jeffrey T. Leek Maintainer: Jeffrey T. Leek MD5sum: ccd3687149a57c8de966caca640e627b source.ver: src/contrib/bladderbatch_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/bladderbatch_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/bladderbatch_1.0.3.tgz vignettes: vignettes/bladderbatch/inst/doc/bladderbatch.pdf vignetteTitles: bladderbatchTutorial hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: breastCancerMAINZ Version: 1.0.3 Depends: R (>= 2.5.0) Suggests: survcomp, genefu, Biobase License: Artistic-2.0 Title: Gene expression dataset published by Schmidt et al. [2008] (MAINZ). Description: Gene expression data from the breast cancer study published by Schmidt et al. in 2008, provided as an eSet. biocViews: ExperimentData, Cancer, GeneExpression, Microarray Author: Markus Schroeder, Benjamin Haibe-Kains, Aedin Culhane, Christos Sotiriou, Gianluca Bontempi, John Quackenbush Maintainer: Markus Schroeder , Benjamin Haibe-Kains URL: http://compbio.dfci.harvard.edu/ MD5sum: 52dfa85183becfccf48003fcf0581c75 source.ver: src/contrib/breastCancerMAINZ_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/breastCancerMAINZ_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/breastCancerMAINZ_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: breastCancerNKI Version: 1.0.3 Depends: R (>= 2.5.0) Suggests: survcomp, genefu, Biobase License: Artistic-2.0 Title: Genexpression dataset published by van't Veer et al. [2002] and van de Vijver et al. [2002] (NKI). Description: Genexpression data from a breast cancer study published by van't Veer et al. in 2002 and van de Vijver et al. in 2002, provided as an eSet. biocViews: ExperimentData, Cancer, GeneExpression, Microarray Author: Markus Schroeder, Benjamin Haibe-Kains, Aedin Culhane, Christos Sotiriou, Gianluca Bontempi, John Quackenbush Maintainer: Markus Schroeder , Benjamin Haibe-Kains URL: http://compbio.dfci.harvard.edu/ MD5sum: 16e750fe6019d3e82adf0513731aac1d source.ver: src/contrib/breastCancerNKI_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/breastCancerNKI_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/breastCancerNKI_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: breastCancerTRANSBIG Version: 1.0.3 Depends: R (>= 2.5.0) Suggests: survcomp, genefu, Biobase License: Artistic-2.0 Title: Gene expression dataset published by Desmedt et al. [2007] (TRANSBIG). Description: Gene expression data from a breast cancer study published by Desmedt et al. in 2007, provided as an eSet. biocViews: ExperimentData, Cancer, GeneExpression, Microarray Author: Markus Schroeder, Benjamin Haibe-Kains, Aedin Culhane, Christos Sotiriou, Gianluca Bontempi, John Quackenbush Maintainer: Markus Schroeder , Benjamin Haibe-Kains URL: http://compbio.dfci.harvard.edu/ MD5sum: 62c8d729f5c6bde267ba79d7ef480a41 source.ver: src/contrib/breastCancerTRANSBIG_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/breastCancerTRANSBIG_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/breastCancerTRANSBIG_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: breastCancerUNT Version: 1.0.3 Depends: R (>= 2.5.0) Suggests: survcomp, genefu, Biobase License: Artistic-2.0 Title: Gene expression dataset published by Sotiriou et al. [2007] (UNT). Description: Gene expression data from a breast cancer study published by Sotiriou et al. in 2007, provided as an eSet. biocViews: ExperimentData, Cancer, GeneExpression, Microarray Author: Markus Schroeder, Benjamin Haibe-Kains, Aedin Culhane, Christos Sotiriou, Gianluca Bontempi, John Quackenbush Maintainer: Markus Schroeder , Benjamin Haibe-Kains URL: http://compbio.dfci.harvard.edu/ MD5sum: 235fad9e96c4a0cba577592cae32261d source.ver: src/contrib/breastCancerUNT_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/breastCancerUNT_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/breastCancerUNT_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: breastCancerUPP Version: 1.0.3 Depends: R (>= 2.5.0) Suggests: survcomp, genefu, Biobase License: Artistic-2.0 Title: Gene expression dataset published by Miller et al. [2005] (UPP). Description: Gene expression data from a breast cancer study published by Miller et al. in 2005, provided as an eSet. biocViews: ExperimentData, Cancer, GeneExpression, Microarray Author: Markus Schroeder, Benjamin Haibe-Kains, Aedin Culhane, Christos Sotiriou, Gianluca Bontempi, John Quackenbush Maintainer: Markus Schroeder , Benjamin Haibe-Kains URL: http://compbio.dfci.harvard.edu/ MD5sum: 8afd0820b0bd49e7cdaa5c73658462bc source.ver: src/contrib/breastCancerUPP_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/breastCancerUPP_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/breastCancerUPP_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: breastCancerVDX Version: 1.0.3 Depends: R (>= 2.5.0) Suggests: survcomp, genefu, Biobase License: Artistic-2.0 Title: Gene expression datasets published by Wang et al. [2005] and Minn et al. [2007] (VDX). Description: Gene expression data from a breast cancer study published by Wang et al. in 2005 and Minn et al. in 2007, provided as an eSet. biocViews: ExperimentData, Cancer, GeneExpression, Microarray Author: Markus Schroeder, Benjamin Haibe-Kains, Aedin Culhane, Christos Sotiriou, Gianluca Bontempi, John Quackenbush Maintainer: Markus Schroeder , Benjamin Haibe-Kains URL: http://compbio.dfci.harvard.edu/ MD5sum: 14ea1ba313a090ec43f1568790653c4e source.ver: src/contrib/breastCancerVDX_1.0.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/breastCancerVDX_1.0.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/breastCancerVDX_1.0.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: bronchialIL13 Version: 1.0.9 Depends: R(>= 2.10.0), affy (>= 1.23.4) License: GPL-2 Title: time course experiment involving il13 Description: derived from CNMC (pepr.cnmcresearch.org) http://pepr.cnmcresearch.org/browse.do?action=list_prj_exp&projectId=95 Human Bronchial Cell line A549 biocViews: ExperimentData, TimeCourse Author: Vince Carey Maintainer: Vince Carey URL: http://www.biostat.harvard.edu/~carey MD5sum: 38ac1d8050ce95dd229470208fed61fb source.ver: src/contrib/bronchialIL13_1.0.9.tar.gz win.binary.ver: bin/windows/contrib/2.15/bronchialIL13_1.0.9.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/bronchialIL13_1.0.9.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: cancerdata Version: 1.1.0 Depends: R (>= 2.10.1), Biobase License: GPL (>= 2) Title: Development and validation of diagnostic tests from high-dimensional molecular data: Datasets Description: Dataset for the R package cancerclass biocViews: Cancer, Microarray, Classification, Visualization Author: Jan Budczies, Daniel Kosztyla Maintainer: Daniel Kosztyla MD5sum: 7007891fe071d642cac0b42fc92fe364 source.ver: src/contrib/cancerdata_1.1.0.tar.gz win.binary.ver: bin/windows/contrib/2.15/cancerdata_1.1.0.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/cancerdata_1.1.0.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ccTutorial Version: 1.0.21 Depends: R (>= 2.10), Ringo(>= 1.9.8), affy(>= 1.23.4), topGO(>= 1.13.1) Imports: Biobase Suggests: biomaRt, Biobase(>= 2.5.5), xtable License: Artistic-2.0 Title: Data package for ChIP-chip tutorial Description: This is a data package that accompanies a ChIP-chip tutorial, which has been published in PLoS Computational Biology. The data and source code in this package allow the reader to completely reproduce the steps in the tutorial. biocViews: ExperimentData, ChIPchipData Author: Joern Toedling, Wolfgang Huber Maintainer: Joern Toedling MD5sum: bc911fa56a7b16b05a5079739157a97f source.ver: src/contrib/ccTutorial_1.0.21.tar.gz win.binary.ver: bin/windows/contrib/2.15/ccTutorial_1.0.21.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ccTutorial_1.0.21.tgz vignettes: vignettes/ccTutorial/inst/doc/ccTutorial.pdf, vignettes/ccTutorial/inst/doc/ccTutorialSupplement.pdf vignetteTitles: A tutorial on how to analyze ChIP-chip readouts using Bioconductor, Supplement to A tutorial on how to analyze ChIP-chip readouts using Bioconductor hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ceu1kg Version: 0.0.30 Depends: R (>= 2.12.0), GGBase (>= 3.9.0), GGtools, Biobase Suggests: SNPlocs.Hsapiens.dbSNP.20101109 License: Artistic-2.0 Title: CEU (N=60) genotypes from 1000 genomes pilot phase I Description: CEU genotypes from 1000 genomes "low coverage" pilot phase I (approx 8 million SNP calls released July 2010); includes Wellcome trust GENEVAR expression for 43 indiv biocViews: Genetics, SNP Author: VJ Carey Maintainer: VJ Carey MD5sum: a4408d9d47cbdf25cc148b3037af3f8d source.ver: src/contrib/ceu1kg_0.0.30.tar.gz win.binary.ver: bin/windows/contrib/2.15/ceu1kg_0.0.30.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ceu1kg_0.0.30.tgz vignettes: vignettes/ceu1kg/inst/doc/ceu1kg.pdf vignetteTitles: ceu1kg overview hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ceuhm3 Version: 0.0.13 Depends: R (>= 2.12.0), GGBase, Biobase Imports: GGtools License: Artistic-2.0 Title: ceuhm3: genotype (HapMap phase III) and expression data for CEPH CEU cohort Description: ceuhm3: genotype (HapMap phase III) and expression data for CEPH CEU cohort biocViews: Genetics, GeneExpression, GeneticVariability, SNP Author: VJ Carey Maintainer: VJ Carey MD5sum: 1c21a514a093f176364d9e4377239782 source.ver: src/contrib/ceuhm3_0.0.13.tar.gz win.binary.ver: bin/windows/contrib/2.15/ceuhm3_0.0.13.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ceuhm3_0.0.13.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: cgdv17 Version: 0.0.17 Depends: R (>= 2.15), VariantAnnotation, org.Hs.eg.db, methods, GGtools, TxDb.Hsapiens.UCSC.hg19.knownGene, parallel Imports: Biobase, IRanges License: Artistic 2.0 Title: Complete Genomics Diversity Panel, chr17 on 46 individuals Description: Complete Genomics Diversity Panel, chr17 on 46 individuals biocViews: genetics Author: VJ Carey Maintainer: VJ Carey MD5sum: ebb7faa53a85afdb3a988e445767b63b source.ver: src/contrib/cgdv17_0.0.17.tar.gz win.binary.ver: bin/windows/contrib/2.15/cgdv17_0.0.17.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/cgdv17_0.0.17.tgz vignettes: vignettes/cgdv17/inst/doc/cgdv.pdf vignetteTitles: cgdv17: extract from Complete Genomics diversity panel hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: charmData Version: 0.99.6 Depends: R(>= 2.11.0), charm, pd.charm.hg18.example License: LGPL (>= 2) Title: An example dataset for use with the charm package Description: An example dataset for use with the charm package biocViews: ExperimentData Author: Martin Aryee Maintainer: Martin Aryee MD5sum: 067b36d8ebdc3f00f99aeee28f07a325 source.ver: src/contrib/charmData_0.99.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/charmData_0.99.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/charmData_0.99.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: cheung2010 Version: 0.0.25 Depends: R (>= 2.13.0), Biobase, GGtools, GenomicRanges, hgfocus.db Imports: AnnotationDbi Suggests: SNPlocs.Hsapiens.dbSNP.20100427, SNPlocs.Hsapiens.dbSNP.20101109, Enhances: parallel License: Artistic 2.0 Title: resources for genetics of gene expression based on Cheung et al 2010 Description: Data resources related to the PLoS Biology paper Polymorphic Cis- and Trans-Regulation of Human Gene Expression, including small-footprint smlSet support for 147 hgfocus arrays and corresponding HapMap genotypes at 1.3 million SNP; 0.0.22+ includes cheung_eset... from Leek et al RECOUNT myrna output biocViews: GeneticVariability, RNAseqData Author: Vince Carey Maintainer: Vince Carey MD5sum: ac37e5507965e0894d7f2879cac22c88 source.ver: src/contrib/cheung2010_0.0.25.tar.gz win.binary.ver: bin/windows/contrib/2.15/cheung2010_0.0.25.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/cheung2010_0.0.25.tgz vignettes: vignettes/cheung2010/inst/doc/arr2hap.pdf, vignettes/cheung2010/inst/doc/cheungTrans.pdf vignetteTitles: arr2hap.pdf, cheungTrans: checking trans eQTL with hgfocus arrays hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE dependsOnMe: ggtut Package: cnvGSAdata Version: 0.99.2 Depends: R (>= 2.10), cnvGSA License: LGPL Title: Data used in the vignette of the cnvGSA package Description: This package contains the data used in the vignette of the cnvGSA package. biocViews: ExperimentData Author: Robert Ziman Maintainer: Robert Ziman MD5sum: 64299e8f7c01e4306840dee832709a41 source.ver: src/contrib/cnvGSAdata_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/cnvGSAdata_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/cnvGSAdata_0.99.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: colonCA Version: 1.4.9 Depends: Biobase (>= 2.5.5) License: LGPL Title: exprSet for Alon et al. (1999) colon cancer data Description: exprSet for Alon et al. (1999) colon cancer data biocViews: ExperimentData, Cancer, Colon Author: Sylvia Merk Maintainer: W Sylvia Merk MD5sum: 6ff14048dbd84c543e750a831f5df149 source.ver: src/contrib/colonCA_1.4.9.tar.gz win.binary.ver: bin/windows/contrib/2.15/colonCA_1.4.9.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/colonCA_1.4.9.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: davidTiling Version: 1.2.15 Depends: R (>= 2.10), Biobase (>= 2.5.5), tilingArray, GO.db License: LGPL Title: Data and analysis scripts for David, Huber et al. yeast tiling array paper Description: This package contains the data for the paper by L. David et al. in PNAS 2006 (PMID 16569694): 8 CEL files of Affymetrix genechips, an ExpressionSet object with the raw feature data, a probe annotation data structure for the chip and the yeast genome annotation (GFF file) that was used. In addition, some custom-written analysis functions are provided, as well as R scripts in the scripts directory. biocViews: ExperimentData, Yeast Author: Wolfgang Huber , Joern Toedling Maintainer: Wolfgang Huber URL: http://www.ebi.ac.uk/huber MD5sum: 419f94a6a0b8b70ceecd35a50f455aa6 source.ver: src/contrib/davidTiling_1.2.15.tar.gz win.binary.ver: bin/windows/contrib/2.15/davidTiling_1.2.15.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/davidTiling_1.2.15.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: dressCheck Version: 0.1.5 Depends: R (>= 2.10.1), methods, Biobase (>= 2.5.5) Suggests: survival, chron License: Artistic-2.0 Title: data and software for checking Dressman JCO 25(5) 2007 Description: data and software for checking Dressman JCO 25(5) 2007 biocViews: Statistics, ExperimentData Author: Vincent Carey Maintainer: Vincent Carey MD5sum: ecb4c9a3942ea1d5a4991063f5942e3a source.ver: src/contrib/dressCheck_0.1.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/dressCheck_0.1.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/dressCheck_0.1.5.tgz vignettes: vignettes/dressCheck/inst/doc/short.pdf vignetteTitles: short review of dressCheck contents hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: dsQTL Version: 0.0.18 Depends: R (>= 2.15.0), utils, GenomicRanges, Biobase, GGBase License: Artistic-2.0 Title: dsQTL, data excerpt from Degner et al. 2012 Nature letter Description: dsQTL, excerpt from Degner et al. 2012 Nature letter on DNA variants associated with DnaseI hypersensitivity biocViews: genetics, HighThroughputSequencingData, ExperimentData Author: VJ Carey Maintainer: VJ Carey MD5sum: c3a0d58b3216bee540f4381172a61f23 source.ver: src/contrib/dsQTL_0.0.18.tar.gz win.binary.ver: bin/windows/contrib/2.15/dsQTL_0.0.18.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/dsQTL_0.0.18.tgz vignettes: vignettes/dsQTL/inst/doc/dsq.pdf vignetteTitles: dsQTL,, data excerpt from Degner et al. 2012 Nature letter hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: dyebiasexamples Version: 1.0.8 Depends: R (>= 1.4.1), marray, GEOquery Suggests: dyebias, convert, Biobase License: GPL-3 Title: Example data for the dyebias package, which implements the GASSCO method. Description: Data for the dyebias package, consisting of 4 self-self hybrizations of self-spotted yeast slides, as well as data from Array Express accession E-MTAB-32 biocViews: Microarray, TwoChannel, ExperimentData Author: Philip Lijnzaad and Thanasis Margaritis Maintainer: Philip Lijnzaad URL: http://www.holstegelab.nl/publications/margaritis_lijnzaad MD5sum: 774c983026c41c6eef06d77e757ea3ca source.ver: src/contrib/dyebiasexamples_1.0.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/dyebiasexamples_1.0.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/dyebiasexamples_1.0.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: TRUE Package: ecoliLeucine Version: 1.2.8 Depends: R (>= 1.9.0), affy (>= 1.23.4), ecolicdf License: GPL (>= 2) Title: Experimental data with Affymetrix E. coli chips Description: Experimental data with Affymetrix E. coli chips, as reported in She-pin Hung, Pierre Baldi, and G. Wesley Hatfield, J. Biol. Chem., Vol. 277, Issue 43, 40309-40323, October 25, 2002 biocViews: ExperimentData, EColiData Author: Laurent Gautier Maintainer: Laurent Gautier MD5sum: d0774ac3d5579655b0b35239bdb5bd24 source.ver: src/contrib/ecoliLeucine_1.2.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/ecoliLeucine_1.2.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ecoliLeucine_1.2.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: encoDnaseI Version: 0.1.14 Depends: R (>= 2.15.0), methods, Biobase (>= 2.5.5), lattice, GGtools, GGBase Suggests: GGdata License: Artistic-2.0 Title: data provided by UCSC for Cd4 raw measures of DnaseI hypersensitivity Description: data provided by UCSC for Cd4 raw measures of DnaseI hypersensitivity biocViews: ExperimentData Author: VJ Carey Maintainer: VJ Carey MD5sum: 0d42a73f8a05db718833320b52ca6e5c source.ver: src/contrib/encoDnaseI_0.1.14.tar.gz win.binary.ver: bin/windows/contrib/2.15/encoDnaseI_0.1.14.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/encoDnaseI_0.1.14.tgz vignettes: vignettes/encoDnaseI/inst/doc/dnaseUse.pdf vignetteTitles: ENCODE/hg18 track demo: DNaseI hypersensitivity hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: estrogen Version: 1.8.8 Depends: R (>= 1.9.0), affy (>= 1.4) Suggests: Biobase (>= 1.13.16), affy, vsn, hgu95av2.db, genefilter License: LGPL Title: 2x2 factorial design exercise for the Bioconductor short course Description: Data from 8 Affymetrix genechips, looking at a 2x2 factorial design (with 2 repeats per level) biocViews: ExperimentData Author: Wolfgang Huber, Robert Gentleman Maintainer: R. Gentleman MD5sum: e08657c50c22f430bdfbd3a67b04ea47 source.ver: src/contrib/estrogen_1.8.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/estrogen_1.8.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/estrogen_1.8.8.tgz vignettes: vignettes/estrogen/inst/doc/estrogen.pdf vignetteTitles: estrogen hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: faahKO Version: 1.2.11 Depends: xcms License: LGPL Title: Saghatelian et al. (2004) FAAH knockout LC/MS data Description: Positive ionization mode data in NetCDF file format. Centroided subset from 200-600 m/z and 2500-4500 seconds. Data originally reported in "Assignment of Endogenous Substrates to Enzymes by Global Metabolite Profiling" Biochemistry; 2004; 43(45). Also includes detected peaks in an xcmsSet. biocViews: ExperimentData, MassSpectrometryData Author: Colin A. Smith Maintainer: Colin A. Smith URL: http://dx.doi.org/10.1021/bi0480335 MD5sum: c45d267118756dba880e53aceae7fa1f source.ver: src/contrib/faahKO_1.2.11.tar.gz win.binary.ver: bin/windows/contrib/2.15/faahKO_1.2.11.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/faahKO_1.2.11.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: facsDorit Version: 1.4.5 Depends: R (>= 1.9.1), prada (>= 1.0.5) License: GPL-2 Title: DKFZ FACS example data Description: FACS example data for cell-based assays. This data is used in the examples and vignettes of the package prada. biocViews: ExperimentData Author: Florian Hahne Maintainer: Florian Hahne URL: http://www.dkfz.de/mga MD5sum: 430a6b8e2b14a8774674fabda828ba8e source.ver: src/contrib/facsDorit_1.4.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/facsDorit_1.4.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/facsDorit_1.4.5.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ffpeExampleData Version: 1.0.1 Depends: R (>= 2.10.0), lumi Suggests: genefilter, affy License: GPL (>2) Title: Illumina DASL example microarray data Description: A subset of GSE17565 (April et al. 2009) containing 32 FFPE samples of Burkitts Lymphoma and Breast Adenocarcinoma, with a dilution series in technical duplicate. biocViews: Microarray, GeneExpression Author: Levi Waldron Maintainer: Levi Waldron MD5sum: dc0634e1b65e3ca596a0db31f7a004f6 source.ver: src/contrib/ffpeExampleData_1.0.1.tar.gz win.binary.ver: bin/windows/contrib/2.15/ffpeExampleData_1.0.1.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ffpeExampleData_1.0.1.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: fibroEset Version: 1.4.7 Depends: Biobase (>= 2.5.5) License: LGPL Title: exprSet for Karaman et al. (2003) fibroblasts data Description: exprSet for Karaman et al. (2003) human, bonobo and gorilla fibroblasts data biocViews: ExperimentData Author: Sylvia Merk Maintainer: Sylvia Merk MD5sum: 873ffda4e4b81b5a365bf48018502dcc source.ver: src/contrib/fibroEset_1.4.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/fibroEset_1.4.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/fibroEset_1.4.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: flowWorkspaceData Version: 0.99.7 License: GPL-2 Title: A data package containing a flowJo xml workspace and associated fcs files for testing the flowWorkspace package. Description: The necessary external data to run the flowWorkspace vignette is found in this package. biocViews: ExperimentData Author: Greg Finak Maintainer: Greg Finak MD5sum: 91b3a195950be1302a071957a5659de2 source.ver: src/contrib/flowWorkspaceData_0.99.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/flowWorkspaceData_0.99.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/flowWorkspaceData_0.99.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: frmaExampleData Version: 0.99.3 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: Frma Example Data Description: Data files used by the examples in frma and frmaTools packages biocViews: Microarray, AffymetrixChip, Homo_sapiens Author: Matthew N. McCall Maintainer: Matthew N. McCall MD5sum: 6d85aa93bcc4e565e400e67dcfe6a7e3 source.ver: src/contrib/frmaExampleData_0.99.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/frmaExampleData_0.99.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/frmaExampleData_0.99.3.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: gageData Version: 1.1.4 Suggests: gage, genefilter License: GPL (>=2.0) Title: Auxillary data for gage package Description: This is a supportive data package for the software package, gage. However, the data supplied here are also useful for gene set or pathway analysis or microarray data analysis in general. In this package, we provide two demo microarray dataset: GSE16873 (a breast cancer dataset from GEO) and BMP6 (originally published as an demo dataset for GAGE, also registered as GSE13604 in GEO). This package also includes commonly used gene set data based on KEGG pathways and GO terms for major research species, including human, mouse, rat and budding yeast. Mapping data between common gene IDs for budding yeast are also included. biocViews: ExperimentData, Cancer Author: Weijun Luo Maintainer: Weijun Luo MD5sum: 0f5ac914f659339ac6c4e254f52f314c source.ver: src/contrib/gageData_1.1.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/gageData_1.1.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/gageData_1.1.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: gaschYHS Version: 1.0.9 Depends: R (>= 2.14.0), Biobase (>= 2.5.5) License: Artistic-2.0 Title: ExpressionSet for response of yeast to heat shock and other environmental stresses Description: Data from PMID 11102521 biocViews: ExperimentData, Yeast Author: Audrey Gasch and colleagues Maintainer: Vince Carey URL: http://genome-www.stanford.edu/yeast_stress/data/rawdata/complete_dataset.txt MD5sum: afe50b4af6cd577fcf292acc042c9c37 source.ver: src/contrib/gaschYHS_1.0.9.tar.gz win.binary.ver: bin/windows/contrib/2.15/gaschYHS_1.0.9.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/gaschYHS_1.0.9.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: gatingMLData Version: 1.0.5 Depends: R (>= 1.9.0) Suggests: flowUtils License: GPL Title: Data and XML files for GatingML Test suite Description: Test data & XML files for Testing compliance with the GatingML 1.5 standards in package flowUtils. biocViews: ExperimentData Author: Nishant Gopalakrishnan Maintainer: Nishant Gopalakrishnan MD5sum: 79c70c9d369a740b6bf84cc75ae8ad18 source.ver: src/contrib/gatingMLData_1.0.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/gatingMLData_1.0.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/gatingMLData_1.0.5.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: gcspikelite Version: 1.0.7 Depends: R (>= 2.5.0) License: LGPL Title: Spike-in data for GC/MS data and methods within flagme Description: Spike-in data for GC/MS data and methods within flagme biocViews: MassSpectrometryData Author: Mark Robinson Maintainer: Mark Robinson MD5sum: 130e11aa665e69096736680794b065e9 source.ver: src/contrib/gcspikelite_1.0.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/gcspikelite_1.0.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/gcspikelite_1.0.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: geneLenDataBase Version: 0.99.9 Depends: R (>= 2.11.0) Imports: utils, rtracklayer, GenomicFeatures (>= 1.3.15) License: LGPL (>= 2) Title: Lengths of mRNA transcripts for a number of genomes Description: Length of mRNA transcripts for a number of genomes and gene ID formats, largely based on UCSC table browser biocViews: HighThroughputSequencingData, ExperimentData, Transcription, RNAseq Author: Matthew Young Maintainer: Matthew Young MD5sum: 56661a67db0499b2341baf2b59cb28ec source.ver: src/contrib/geneLenDataBase_0.99.9.tar.gz win.binary.ver: bin/windows/contrib/2.15/geneLenDataBase_0.99.9.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/geneLenDataBase_0.99.9.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ggtut Version: 0.0.42 Depends: R (>= 2.14.0), GGtools (>= 3.11.32), ff, GenomicRanges, snpStats, GGdata, GenomicFeatures, ChIPpeakAnno, Rsamtools(>= 1.5.35), cheung2010, SNPlocs.Hsapiens.dbSNP.20090506, hmyriB36 Suggests: rtracklayer, GenomicFeatures, ChIPpeakAnno, TxDb.Hsapiens.UCSC.hg18.knownGene License: Artistic-2.0 Title: support for tutorial on genetics of gene expression ISMB 2011 Description: various resources for genetics of expression with R/bioc Author: VJ Carey Maintainer: VJ Carey MD5sum: 3d9fbea5adb3cc8101f5e4315ff81ad3 source.ver: src/contrib/ggtut_0.0.42.tar.gz win.binary.ver: bin/windows/contrib/2.15/ggtut_0.0.42.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ggtut_0.0.42.tgz vignettes: vignettes/ggtut/inst/doc/careyGGtutslides.pdf, vignettes/ggtut/inst/doc/extras.pdf, vignettes/ggtut/inst/doc/tut11.pdf, vignettes/ggtut/inst/doc/tut12.pdf vignetteTitles: careyGGtutslides.pdf, extras.pdf, tut11.pdf, tut12.pdf hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: golubEsets Version: 1.4.11 Depends: R (>= 2.14.0), Biobase (>= 2.5.5) License: LGPL Title: exprSets for golub leukemia data Description: representation of public golub data with some covariate data of provenance unknown to the maintainer at present; now employs ExpressionSet format biocViews: ExperimentData, Cancer, Leukemia Author: Todd Golub Maintainer: Vince Carey MD5sum: ffbb4cf096cc29dabbeefab9b90d029d source.ver: src/contrib/golubEsets_1.4.11.tar.gz win.binary.ver: bin/windows/contrib/2.15/golubEsets_1.4.11.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/golubEsets_1.4.11.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hapmap100khind Version: 1.3.35 Suggests: oligo License: GPL Title: Sample data - Hapmap 100K HIND Affymetrix Description: Sample dataset obtained from http://www.hapmap.org biocViews: ExperimentData, HapMap Author: Hapmap Consortium Maintainer: Benilton Carvalho MD5sum: 084c13b194b9c61bbd921875a4240603 source.ver: src/contrib/hapmap100khind_1.3.35.tar.gz win.binary.ver: bin/windows/contrib/2.15/hapmap100khind_1.3.35.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hapmap100khind_1.3.35.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hapmap100kxba Version: 1.3.6 Suggests: oligo License: GPL Title: Sample data - Hapmap 100K XBA Affymetrix Description: Sample dataset obtained from http://www.hapmap.org biocViews: ExperimentData, HapMap Author: Hapmap Consortium Maintainer: Benilton Carvalho MD5sum: 861fb33afe3b4de62477279ce007b56a source.ver: src/contrib/hapmap100kxba_1.3.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/hapmap100kxba_1.3.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hapmap100kxba_1.3.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hapmap500knsp Version: 1.3.6 Suggests: oligo License: GPL Title: Sample data - Hapmap 500K NSP Affymetrix Description: Sample dataset obtained from http://www.hapmap.org biocViews: ExperimentData, HapMap Author: Hapmap Consortium Maintainer: Benilton Carvalho MD5sum: 149e680fa2640d3b22e1616e3b5333f7 source.ver: src/contrib/hapmap500knsp_1.3.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/hapmap500knsp_1.3.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hapmap500knsp_1.3.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hapmap500ksty Version: 1.3.6 Suggests: oligo License: GPL Title: Sample data - Hapmap 500K STY Affymetrix Description: Sample dataset obtained from http://www.hapmap.org biocViews: ExperimentData, HapMap Author: Hapmap Consortium Maintainer: Benilton Carvalho MD5sum: e566f0e7b342d48bdbb783c65acb1de5 source.ver: src/contrib/hapmap500ksty_1.3.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/hapmap500ksty_1.3.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hapmap500ksty_1.3.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hapmapsnp5 Version: 1.3.6 Suggests: oligo License: GPL Title: Sample data - Hapmap SNP 5.0 Affymetrix Description: Sample dataset obtained from http://www.hapmap.org biocViews: ExperimentData, HapMap Author: Hapmap Consortium Maintainer: Benilton Carvalho MD5sum: 100ee7a69615e2b289b4f28f9e071cca source.ver: src/contrib/hapmapsnp5_1.3.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/hapmapsnp5_1.3.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hapmapsnp5_1.3.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hapmapsnp6 Version: 1.3.7 Depends: R (>= 2.15) Suggests: oligo, oligoClasses License: GPL Title: Sample data - Hapmap SNP 6.0 Affymetrix Description: Sample dataset obtained from http://www.hapmap.org biocViews: ExperimentData, HapMap Author: Hapmap Consortium Maintainer: Benilton Carvalho MD5sum: ae17d909d9b99471d0fe1b19e0979883 source.ver: src/contrib/hapmapsnp6_1.3.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/hapmapsnp6_1.3.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hapmapsnp6_1.3.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: harbChIP Version: 1.0.8 Depends: R (>= 2.10.0), tools, utils, IRanges, Biobase (>= 2.5.5), Biostrings Imports: methods, stats License: Artistic-2.0 Title: Experimental Data Package: harbChIP Description: data from a yeast ChIP-chip experiment biocViews: ExperimentData, Yeast, ChIPchip Author: VJ Carey Maintainer: VJ Carey MD5sum: c27029c52f178732175121361691c12c source.ver: src/contrib/harbChIP_1.0.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/harbChIP_1.0.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/harbChIP_1.0.8.tgz vignettes: vignettes/harbChIP/inst/doc/yeastUpstream.pdf vignetteTitles: upstream sequence management for yeast hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hgu133abarcodevecs Version: 1.0.4 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: hgu133a data for barcode Description: Data used by the barcode package for microarrays of type hgu133a. biocViews: AnnotationData, AffymetrixChip, hgu133a, Homo_sapiens Author: Matthew N. McCall , Rafael A. Irizarry Maintainer: Matthew N. McCall MD5sum: 41a7b65ea201032c9e52692534db5d4e source.ver: src/contrib/hgu133abarcodevecs_1.0.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/hgu133abarcodevecs_1.0.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hgu133abarcodevecs_1.0.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hgu133afrmavecs Version: 1.1.10 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: Vectors used by frma for microarrays of type hgu133a Description: This package was created by frmaTools version 1.9.1. biocViews: AnnotationData, AffymetrixChip, hgu133a, Homo_sapiens Author: Matthew N. McCall , Rafael A. Irizarry Maintainer: Matthew N. McCall MD5sum: 143c618d1f327cda5a6a46c40835f3c0 source.ver: src/contrib/hgu133afrmavecs_1.1.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/hgu133afrmavecs_1.1.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hgu133afrmavecs_1.1.10.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hgu133plus2barcodevecs Version: 1.0.4 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: hgu133plus2 data for barcode Description: Data used by the barcode package for microarrays of type hgu133plus2. biocViews: AnnotationData, AffymetrixChip, hgu133plus2, Homo_sapiens Author: Matthew N. McCall , Rafael A. Irizarry Maintainer: Matthew N. McCall MD5sum: d51f7dc2ffa94a1a027116cc861eb76d source.ver: src/contrib/hgu133plus2barcodevecs_1.0.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/hgu133plus2barcodevecs_1.0.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hgu133plus2barcodevecs_1.0.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hgu133plus2frmavecs Version: 1.1.10 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: Vectors used by frma for microarrays of type hgu133plus2 Description: This package was created by frmaTools version 1.9.1. biocViews: AnnotationData, AffymetrixChip, hgu133plus2, Homo_sapiens Author: Matthew N. McCall , Rafael A. Irizarry Maintainer: Matthew N. McCall MD5sum: 27c67e5dd898ed0cd738668bf301da88 source.ver: src/contrib/hgu133plus2frmavecs_1.1.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/hgu133plus2frmavecs_1.1.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hgu133plus2frmavecs_1.1.10.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hgu2beta7 Version: 1.2.6 Depends: R (>= 2.0.0) License: Artistic-2.0 Title: A data package containing annotation data for hgu2beta7 Description: Annotation data file for hgu2beta7 assembled using data from public data repositories biocViews: AnnotationData Author: Chenwei Lin Maintainer: Bioconductor Package Maintainer MD5sum: f508bdb07b058465f52d834663b5dfa0 source.ver: src/contrib/hgu2beta7_1.2.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/hgu2beta7_1.2.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hgu2beta7_1.2.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: hmyriB36 Version: 0.99.15 Depends: R (>= 2.13.0), methods, Biobase (>= 2.5.5), GGBase Suggests: GGtools, illuminaHumanv1.db License: Artistic-2.0 Title: YRI hapmap + expression (GENEVAR), Build 36, r23a genotypes Description: YRI hapmap + expression (GENEVAR), Build 36, r23a genotypes biocViews: Statistics, ExperimentData Author: Vincent Carey Maintainer: Vincent Carey MD5sum: 448f8c39eafb868bf8b87fd9302deb7d source.ver: src/contrib/hmyriB36_0.99.15.tar.gz win.binary.ver: bin/windows/contrib/2.15/hmyriB36_0.99.15.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/hmyriB36_0.99.15.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE dependsOnMe: ggtut suggestsMe: ind1KG Package: humanStemCell Version: 0.2.6 Depends: Biobase (>= 2.5.5), hgu133plus2.db License: Artistic-2.0 Title: Human Stem Cells time course experiment Description: Affymetrix time course experiment on human stem cells (two time points: undifferentiated and differentiated). biocViews: ExperimentData, StemCells Author: R. Gentleman, N. Le Meur, M. Tewari Maintainer: R. Gentleman MD5sum: 3f0a52c7f9fe766933fff63da779492b source.ver: src/contrib/humanStemCell_0.2.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/humanStemCell_0.2.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/humanStemCell_0.2.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ind1KG Version: 0.1.13 Depends: R (>= 2.10.1), Rsamtools, TxDb.Hsapiens.UCSC.hg18.knownGene Suggests: GenomicFeatures, rtracklayer, org.Hs.eg.db, chopsticks, SNPlocs.Hsapiens.dbSNP.20090506, lumiHumanIDMapping, GGBase, GGtools, hmyriB36 License: Artistic-2.0 Title: Data from 1000 Genomes, NA19240 (female) chr6 excerpt Description: Elements of samtools/bioc workflow for dealing with personal sequence focusing on identification and interpretation of rare variants biocViews: Genetics, HighThroughputSequencing Author: VJ Carey Maintainer: VJ Carey MD5sum: 4b7a0db1e06134920829b9398e802fd3 source.ver: src/contrib/ind1KG_0.1.13.tar.gz win.binary.ver: bin/windows/contrib/2.15/ind1KG_0.1.13.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ind1KG_0.1.13.tgz vignettes: vignettes/ind1KG/inst/doc/ind1KG.pdf, vignettes/ind1KG/inst/doc/nov09rv.pdf vignetteTitles: ind1KG -- 1000 genomes data demo, Notes for eSet developers hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: iontreeData Version: 0.99.6 License: GPL-2 Title: Data provided to show the usage of functions in iontree package Description: Raw MS2, MS3 scans from direct infusion mass spectrometry (DIMS) and a demo ion tree database 'mzDB' derived from the DIMS data are included. The demo database is used to show the functionalities provided by the 'iontree' package, not for the purpose of compound identification by any means. biocViews: ExperimentData, Metabolomics Author: Mingshu Cao Maintainer: Mingshu Cao MD5sum: 5f7198e3676e10c58a14e4adf338612e source.ver: src/contrib/iontreeData_0.99.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/iontreeData_0.99.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/iontreeData_0.99.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: kidpack Version: 1.5.10 Depends: R (>= 2.6.0), Biobase (>= 2.5.5) License: GPL-2 Title: DKFZ kidney package Description: kidney microarray data biocViews: ExperimentData, Cancer, Kidney Author: Wolfgang Huber Maintainer: Wolfgang Huber URL: http://www.dkfz.de/mga MD5sum: 4710139f51be0d56603bb69976529505 source.ver: src/contrib/kidpack_1.5.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/kidpack_1.5.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/kidpack_1.5.10.tgz vignettes: vignettes/kidpack/inst/doc/kidpack.pdf vignetteTitles: kidpack - overview over the DKFZ kidney data package hasREADME: TRUE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: leeBamViews Version: 0.99.19 Depends: R (>= 2.15.0), Biobase, Rsamtools (>= 0.1.50), BSgenome Imports: GenomicRanges, methods Suggests: GenomeGraphs, biomaRt, org.Sc.sgd.db, edgeR Enhances: multicore License: Artistic 2.0 Title: leeBamViews -- multiple yeast RNAseq samples excerpted from Lee 2009 Description: data from PMID 19096707; prototype for managing multiple NGS samples biocViews: HighThroughputSequencing, RNAseq, CellBiology, Genetics, DifferentialExpression, RNAseqData Author: VJ Carey Maintainer: VJ Carey MD5sum: dff9a214cfcafc644820ef53894900cd source.ver: src/contrib/leeBamViews_0.99.19.tar.gz win.binary.ver: bin/windows/contrib/2.15/leeBamViews_0.99.19.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/leeBamViews_0.99.19.tgz vignettes: vignettes/leeBamViews/inst/doc/leeViews.pdf vignetteTitles: managing multiple NGS samples with bamViews hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: lumiBarnes Version: 1.3.8 Depends: R (>= 2.0), Biobase (>= 2.5.5), lumi (>= 1.1.0) License: LGPL Title: Barnes Benchmark Illumina Tissues Titration Data Description: The Barnes benchmark dataset can be used to evaluate the algorithms for Illumina microarrays. It measured a titration series of two human tissues, blood and placenta, and includes six samples with the titration ratio of blood and placenta as 100:0, 95:5, 75:25, 50:50, 25:75 and 0:100. The samples were hybridized on HumanRef-8 BeadChip (Illumina, Inc) in duplicate. The data is loaded as an LumiBatch Object (see documents in the lumi package). biocViews: ExperimentData, OneChannel, RNAExpressionData, NormalTissue Author: Pan Du Maintainer: Pan Du MD5sum: 2e7a9d4d2f7e710f54311dcd9e88af9a source.ver: src/contrib/lumiBarnes_1.3.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/lumiBarnes_1.3.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/lumiBarnes_1.3.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: lungExpression Version: 0.0.13 Depends: R (>= 2.4.0), Biobase (>= 2.5.5) License: GPL (>= 2) Title: ExpressionSets for Parmigiani et al., 2004 Clinical Cancer Research paper Description: Data from three large lung cancer studies provided as ExpressionSets biocViews: ExperimentData, Cancer, Lung Author: Robert Scharpf , Simens Zhong , Giovanni Parmigiani Maintainer: Robert Scharpf MD5sum: 0b8993b0e4071e4b37d03419fb410fb6 source.ver: src/contrib/lungExpression_0.0.13.tar.gz win.binary.ver: bin/windows/contrib/2.15/lungExpression_0.0.13.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/lungExpression_0.0.13.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: maqcExpression4plex Version: 1.4.2 Suggests: oligo, pdInfoBuilder License: GPL Title: Sample Expression Data - MAQC / HG18 - NimbleGen Description: Data from human (HG18) 4plex NimbleGen array. It has 24k genes with 3 60mer probes per gene. biocViews: ExperimentData Author: NimbleGen Systems Maintainer: Benilton Carvalho MD5sum: d4654e94eafcb1b63d10f80573e7b7fe source.ver: src/contrib/maqcExpression4plex_1.4.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/maqcExpression4plex_1.4.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/maqcExpression4plex_1.4.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: miRNATarget Version: 0.99.1 Depends: R (>= 2.10), Biobase License: GPL Title: gene target tabale of miRNA for human/mouse used for MiRaGE package Description: gene target tabale of miRNA for human/mouse used for MiRaGE package biocViews: ExperimentData, Author: Y-h. Taguchi Maintainer: Y-h. Taguchi MD5sum: c75c651f258b66c216ce1ae7f4a69ba4 source.ver: src/contrib/miRNATarget_0.99.1.tar.gz win.binary.ver: bin/windows/contrib/2.15/miRNATarget_0.99.1.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/miRNATarget_0.99.1.tgz vignettes: vignettes/miRNATarget/inst/doc/miRNATarget.pdf vignetteTitles: miRNATargetTutorial hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: minfiData Version: 0.3.0 Depends: R (>= 2.13.0), minfi, IlluminaHumanMethylation450kmanifest License: Artistic-2.0 Title: Example data for the Illumina Methylation 450k array Description: Data from 6 samples across 2 groups from 450k methylation arrays biocViews: DNAMethylation Author: Kasper Daniel Hansen, Martin Aryee, Winston Timp Maintainer: Kasper Daniel Hansen MD5sum: 746a688724bd0af2a11dc637e38877a3 source.ver: src/contrib/minfiData_0.3.0.tar.gz win.binary.ver: bin/windows/contrib/2.15/minfiData_0.3.0.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/minfiData_0.3.0.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: mosaicsExample Version: 0.99.6 Depends: R (>= 2.11.1) License: GPL (>= 2) Title: Example data for the mosaics package, which implements MOSAiCS, a statistical framework to analyze one-sample or two-sample ChIP-seq data Description: Data for the mosaics package, consisting of chromosome 21 ChIP and control sample data from a ChIP-seq experiment of STAT1 binding, with mappability, GC content, and sequence ambiguity scores of human genome HG18. biocViews: ExperimentData, ChIPseqData, Homo_sapiens Author: Dongjun Chung, Pei Fen Kuan, Sunduz Keles Maintainer: Dongjun Chung URL: http://groups.google.com/group/mosaics_user_group MD5sum: cfa5e1b95bf3c8c9b1872faabd046b07 source.ver: src/contrib/mosaicsExample_0.99.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/mosaicsExample_0.99.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/mosaicsExample_0.99.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: mouse4302barcodevecs Version: 1.0.4 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: mouse4302 data for barcode Description: Data used by the barcode package for microarrays of type mouse4302. biocViews: AnnotationData, AffymetrixChip, mouse4302, Mus_musculus Author: Matthew N. McCall , Rafael A. Irizarry Maintainer: Matthew N. McCall MD5sum: d2f130b05e8b4d05b193fad998070c1a source.ver: src/contrib/mouse4302barcodevecs_1.0.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/mouse4302barcodevecs_1.0.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/mouse4302barcodevecs_1.0.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: mouse4302frmavecs Version: 1.1.10 Depends: R (>= 2.10.0) License: GPL (>= 2) Title: Vectors used by frma for microarrays of type mouse4302 Description: This package was created by frmaTools version 1.9.1. biocViews: AnnotationData, AffymetrixChip, mouse4302, Mus_musculus Author: Matthew N. McCall , Rafael A. Irizarry Maintainer: Matthew N. McCall MD5sum: bb987523177159d875fb088380bcd95b source.ver: src/contrib/mouse4302frmavecs_1.1.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/mouse4302frmavecs_1.1.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/mouse4302frmavecs_1.1.10.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: msdata Version: 0.1.10 Suggests: xcms License: GPL (>= 2) Title: Various Mass Spectrometry raw data example files Description: Ion Trap positive ionization mode data in mzData file format. Subset from 500-850 m/z and 1190-1310 seconds, incl. MS2 and MS3, intensity threshold 100.000. Extracts from FTICR Apex III, m/z 400-450. Subset of UPLC - Bruker micrOTOFq data, both mzData and mzML. biocViews: ExperimentData Author: Steffen Neumann Maintainer: Steffen Neumann MD5sum: ba432c19cc3c600e3c597b90d4459ff5 source.ver: src/contrib/msdata_0.1.10.tar.gz win.binary.ver: bin/windows/contrib/2.15/msdata_0.1.10.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/msdata_0.1.10.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: mvoutData Version: 0.99.8 Depends: R (>= 2.10.0), methods, Biobase (>= 2.5.5), affy (>= 1.23.4), lumi License: Artistic-2.0 Title: affy and illumina raw data for assessing outlier detector performance Description: affy and illumina raw data for assessing outlier detector performance biocViews: ExperimentData Author: VJ Carey Maintainer: VJ Carey MD5sum: d4bc448f39ad95c3827d069dcb030f13 source.ver: src/contrib/mvoutData_0.99.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/mvoutData_0.99.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/mvoutData_0.99.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: pasillaBamSubset Version: 0.0.5 Suggests: pasilla License: LGPL Title: Subset of BAM files from "Pasilla" experiment Description: Subset of BAM files untreated1.bam (single-end reads) and untreated3.bam (paired-end reads) from "Pasilla" experiment (Pasilla knock-down by Brooks et al., Genome Research 2011). See the vignette in the pasilla data package for how BAM files untreated1.bam and untreated3.bam were obtained from the RNA-Seq read sequence data that is provided by NCBI Gene Expression Omnibus under accession numbers GSM461176 to GSM461181. Also contains the DNA sequence for fly chromosome 4 to which the reads can be mapped. biocViews: ExperimentData, RNAseqData Author: H. Pages Maintainer: H. Pages MD5sum: bc10d1bf44ac1be690df6147d8e068bf source.ver: src/contrib/pasillaBamSubset_0.0.5.tar.gz win.binary.ver: bin/windows/contrib/2.15/pasillaBamSubset_0.0.5.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/pasillaBamSubset_0.0.5.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: pasilla Version: 0.2.13 Depends: DEXSeq, DESeq Suggests: locfit, edgeR, xtable License: LGPL Title: Data package with per-exon and per-gene read counts of RNA-seq samples of Pasilla knock-down by Brooks et al., Genome Research 2011. Description: This package provides per-exon and per-gene read counts computed for selected genes from RNA-seq data that were presented in the article "Conservation of an RNA regulatory map between Drosophila and mammals" by Brooks AN, Yang L, Duff MO, Hansen KD, Park JW, Dudoit S, Brenner SE, Graveley BR, Genome Res. 2011 Feb;21(2):193-202, Epub 2010 Oct 4, PMID: 20921232. The experiment studied the effect of RNAi knockdown of Pasilla, the Drosophila melanogaster ortholog of mammalian NOVA1 and NOVA2, on the transcriptome. The package vignette describes how the data provided here were derived from the RNA-Seq read sequence data that is provided by NCBI Gene Expression Omnibus under accession numbers GSM461176 to GSM461181 biocViews: ExperimentData, RNAseqData Author: Wolfgang Huber, Alejandro Reyes Maintainer: Alejandro Reyes MD5sum: f48147da3c45d66b6f5402e984f0d026 source.ver: src/contrib/pasilla_0.2.13.tar.gz win.binary.ver: bin/windows/contrib/2.15/pasilla_0.2.13.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/pasilla_0.2.13.tgz vignettes: vignettes/pasilla/inst/doc/create_objects.pdf vignetteTitles: Data preprocessing and creation of the data objects pasillaGenes and pasillaExons hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE suggestsMe: pasillaBamSubset Package: pcaGoPromoter.Hs.hg19 Version: 0.99.2 License: GPL (>= 2) Title: pcaGoPromoter.Hs.hg19 is a data package used by pcaGoPromoter Description: Contains the data for transciption factors analysis of organism Homo Sapiens with package pcaGoPromoter biocViews: AnnotationData, Homo_sapiens Author: Morten Hansen, Maintainer: Morten Hansen, MD5sum: 1a6d1054796af4f7fbcbc7aa66748986 source.ver: src/contrib/pcaGoPromoter.Hs.hg19_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/pcaGoPromoter.Hs.hg19_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/pcaGoPromoter.Hs.hg19_0.99.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: pcaGoPromoter.Mm.mm9 Version: 0.99.2 License: GPL (>= 2) Title: pcaGoPromoter.Mm.mm9 is a data package used by pcaGoPromoter Description: Contains the data for transciption factors analysis of organism Mus musculus with package pcaGoPromoter biocViews: AnnotationData, Mus_musculus Author: Morten Hansen, Maintainer: Morten Hansen, MD5sum: 4c0901797661fadb51154a93b45650e1 source.ver: src/contrib/pcaGoPromoter.Mm.mm9_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/pcaGoPromoter.Mm.mm9_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/pcaGoPromoter.Mm.mm9_0.99.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: pcaGoPromoter.Rn.rn4 Version: 0.99.2 License: GPL (>= 2) Title: pcaGoPromoter.Rn.rn4 is a data package used by pcaGoPromoter Description: Contains the data for transciption factors analysis of organism Rattus norvegicus with package pcaGoPromoter biocViews: AnnotationData, Rattus_norvegicus Author: Morten Hansen, Maintainer: Morten Hansen, MD5sum: 8fdd68beca264e5a2ab35f29d0921a45 source.ver: src/contrib/pcaGoPromoter.Rn.rn4_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/pcaGoPromoter.Rn.rn4_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/pcaGoPromoter.Rn.rn4_0.99.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: ppiData Version: 0.1.17 Depends: graph Suggests: org.Sc.sgd.db, ppiStats License: Artistic-2.0 Title: A package that contains the bait to prey directed graphs for protein-protein interactions. Description: This package contains the directed graphs for protein interaction data as derived from Y2H and APMS as well as the code used to obtain the y2h data from IntAct Repository. biocViews: ExperimentData Author: Tony Chiang Maintainer: Tony Chiang MD5sum: c278802a2bf72dfe4c57e0f2de5c8136 source.ver: src/contrib/ppiData_0.1.17.tar.gz win.binary.ver: bin/windows/contrib/2.15/ppiData_0.1.17.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/ppiData_0.1.17.tgz vignettes: vignettes/ppiData/inst/doc/ hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: pumadata Version: 1.99.3 Depends: R (>= 2.4.0), affy (>= 1.23.4), Biobase (>= 2.5.5), puma License: LGPL Title: Various data sets for use with the puma package Description: This is a simple data package including various data sets derived from the estrogen data for use with the puma (Propagating Uncertainty in Microarray Analysis) package. biocViews: ExperimentData Author: Richard Pearson Maintainer: Richard Pearson URL: http://umber.sbs.man.ac.uk/resources/puma MD5sum: b63f87be35ab29f1cda4aa5b2f6ea211 source.ver: src/contrib/pumadata_1.99.3.tar.gz win.binary.ver: bin/windows/contrib/2.15/pumadata_1.99.3.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/pumadata_1.99.3.tgz vignettes: vignettes/pumadata/inst/doc/pumadata.pdf vignetteTitles: pumadata User Guide hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: rheumaticConditionWOLLBOLD Version: 1.0.1 Depends: R (>= 2.10.0) Suggests: genefilter, Biobase, hgu133plus2.db License: Artistic-2.0 Title: Normalized gene expression dataset published by Wollbold et al. [2009] (WOLLBOLD). Description: Normalized gene expression data from rheumatic diseases from study published by Wollbold et al. in 2009, provided as an eSet. biocViews: ExperimentData, Rheumatic diseases,Arthritis, Osteoarthritis, GeneExpression, Microarray Author: Alejandro Quiroz-Zarate, John Quackenbush Maintainer: Alejandro Quiroz-Zarate URL: http://compbio.dfci.harvard.edu/ MD5sum: 41d809e0eb79c3a31b2dfbf9985a50c8 source.ver: src/contrib/rheumaticConditionWOLLBOLD_1.0.1.tar.gz win.binary.ver: bin/windows/contrib/2.15/rheumaticConditionWOLLBOLD_1.0.1.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/rheumaticConditionWOLLBOLD_1.0.1.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: serumStimulation Version: 0.99.2 Depends: R (>= 2.10) License: GPL (>= 2) Title: serumStimulation is a data package which is used by examples in package pcaGoPromoter Description: Contains 13 micro array data results from a serum stimulation experiment biocViews: ExperimentData Author: Morten Hansen, Maintainer: Morten Hansen, MD5sum: 32be3d6dca671a2c6c4d962c6dd30b66 source.ver: src/contrib/serumStimulation_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/serumStimulation_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/serumStimulation_0.99.2.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: simpIntLists Version: 0.99.2 License: GPL (>= 2) Title: The package contains BioGRID interactions for various organisms in a simple format Description: The package contains BioGRID interactions for arabidopsis(thale cress), c.elegans, fruit fly, human, mouse, yeast( budding yeast ) and S.pombe (fission yeast) . Entrez ids, official names and unique ids can be used to find proteins. The format of interactions are lists. For each gene/protein, there is an entry in the list with "name" containing name of the gene/protein and "interactors" containing the list of genes/proteins interacting with it. biocViews: ExperimentData Author: Kircicegi Korkmaz, Volkan Atalay, Rengul Cetin-Atalay Maintainer: Kircicegi Korkmaz MD5sum: 7215e5ff161f46560e74cf8c333b212a source.ver: src/contrib/simpIntLists_0.99.2.tar.gz win.binary.ver: bin/windows/contrib/2.15/simpIntLists_0.99.2.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/simpIntLists_0.99.2.tgz vignettes: vignettes/simpIntLists/inst/doc/simpIntLists.pdf vignetteTitles: hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: stjudem Version: 1.2.7 Depends: R (>= 2.10), utils License: LGPL (>= 2) Title: Microarray Data from Yeoh et al. in MACAT format Description: This is a microarray data set on acute lymphoblastic leukemia, published in 2002 (Yeoh et al.Cancer Cell 2002). The experiments were conducted in the St.Jude Children's Research Hospital, Memphis, Tenessee, USA. The raw data was preprocessed by variance stabilizing normalization (Huber et al.) on probe and subsequent summarization of probe expression values into probe set expression values using median polish. biocViews: ExperimentData Author: Benjamin Georgi, Matthias Heinig, Sebastian Schmeier, Joern Toedling Maintainer: Joern Toedling MD5sum: 90dd2dee1c5853150da245cabac23d03 source.ver: src/contrib/stjudem_1.2.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/stjudem_1.2.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/stjudem_1.2.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: tinesath1cdf Version: 1.0.7 License: Artistic-2.0 Title: tinesath1cdf Description: A package containing an environment represeting the newcdf/tinesATH1.cdf.cdf file. biocViews: AnnotationData, AffymetrixChip, ath1121501, Arabidopsis_thaliana Author: Tine Casneuf Maintainer: Tine Casneuf MD5sum: 3bc78458bf39325930cd67414e0585a8 source.ver: src/contrib/tinesath1cdf_1.0.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/tinesath1cdf_1.0.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/tinesath1cdf_1.0.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE dependsOnMe: XhybCasneuf Package: tinesath1probe Version: 1.0.7 Depends: R (>= 1.6), AnnotationDbi (>= 1.11.9) License: LGPL Title: Probe sequence data for microarrays of type tinesath1 Description: This package was automatically created by package matchprobes version 1.4.0. The probe sequence data was obtained from http://www.affymetrix.com. biocViews: AnnotationData, AffymetrixChip, tinesath1, Arabidopsis_thaliana Author: The Bioconductor Project www.bioconductor.org Maintainer: Tine Casneuf MD5sum: d1246459667221ab2485b22901b18b84 source.ver: src/contrib/tinesath1probe_1.0.7.tar.gz win.binary.ver: bin/windows/contrib/2.15/tinesath1probe_1.0.7.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/tinesath1probe_1.0.7.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: tweeDEseqCountData Version: 1.0.6 Depends: Biobase, R (>= 2.10) License: GPL (>=2) Title: RNA-seq count data employed in the vignette of the tweeDEseq package Description: RNA-seq count data from Pickrell et al. (2010) employed to illustrate the use of the Poisson-Tweedie family of distributions with the tweeDEseq package. biocViews: HighThroughputSequencingData, RNAseqData Author: Juan R Gonzalez and Mikel Esnaola (with contributions from Robert Castelo ) Maintainer: Juan R Gonzalez URL: http://www.creal.cat/jrgonzalez/software.htm MD5sum: 9c90ae4ebd3212a2c082d48deaee2e7e source.ver: src/contrib/tweeDEseqCountData_1.0.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/tweeDEseqCountData_1.0.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/tweeDEseqCountData_1.0.6.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: waveTilingData Version: 0.99.0 Depends: R (>= 2.14.0) License: GPL (>= 2) Title: waveTiling Example Data Description: Experiment and Annotation Data files used by the examples / vignette in the waveTiling package biocViews: Microarray, AnnotationData, ExperimentData Author: Kristof De Beuf Maintainer: Kristof De Beuf MD5sum: 7aa97b98c8d7db2260b8fd467df5b44b source.ver: src/contrib/waveTilingData_0.99.0.tar.gz win.binary.ver: bin/windows/contrib/2.15/waveTilingData_0.99.0.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/waveTilingData_0.99.0.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: yeastCC Version: 1.2.16 Depends: Biobase (>= 2.5.5) License: Artistic-2.0 Title: Spellman et al. (1998) and Pramila/Breeden (2006) yeast cell cycle microarray data Description: ExpressionSet for Spellman et al. (1998) yeast cell cycle microarray experiment biocViews: ExperimentData, Yeast Author: Sandrine Dudoit Maintainer: Sandrine Dudoit MD5sum: 0a5130c77bc6b5cad84d35b1ce3ed80f source.ver: src/contrib/yeastCC_1.2.16.tar.gz win.binary.ver: bin/windows/contrib/2.15/yeastCC_1.2.16.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/yeastCC_1.2.16.tgz vignettes: vignettes/yeastCC/inst/doc/Spellmanetal.pdf vignetteTitles: Spellmanetal.pdf hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: yeastExpData Version: 0.9.20 Depends: R (>= 2.4), graph (>= 1.9.26) Suggests: Biobase, GO.db, RBGL, org.Sc.sgd.db License: GPL Title: Yeast Experimental Data Description: A collection of different sets of experimental data from yeast. biocViews: ExperimentData, Yeast Author: R. Gentleman Maintainer: R. Gentleman MD5sum: 348cdaf70f59d3cee86438f37d6d43e5 source.ver: src/contrib/yeastExpData_0.9.20.tar.gz win.binary.ver: bin/windows/contrib/2.15/yeastExpData_0.9.20.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/yeastExpData_0.9.20.tgz vignettes: vignettes/yeastExpData/inst/doc/yeastExample.pdf vignetteTitles: Yeast PPI Example hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: yeastGSData Version: 0.1.8 License: Artistic-2.0 Title: Yeast Gold Standard Data Description: A collection of so-called gold (and other) standard data sets biocViews: ExperimentData, Yeast Author: R. Gentleman Maintainer: R. Gentleman MD5sum: eb186dc04059ec312b55fa9fede1f108 source.ver: src/contrib/yeastGSData_0.1.8.tar.gz win.binary.ver: bin/windows/contrib/2.15/yeastGSData_0.1.8.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/yeastGSData_0.1.8.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: yeastNagalakshmi Version: 0.99.4 License: Artistic-2.0 Title: Yeast genome RNA sequencing data based on Nagalakshmi et. al. Description: The yeast genome data was retrieved from the sequence read archive, aligned with bwa, and converted to BAM format with samtools. biocViews: ExperimentData, Yeast, ChIPseqData Author: Martin Morgan Maintainer: Bioconductor Package Maintainer MD5sum: 97fc56259e23fdd0cb3b7f933eff0130 source.ver: src/contrib/yeastNagalakshmi_0.99.4.tar.gz win.binary.ver: bin/windows/contrib/2.15/yeastNagalakshmi_0.99.4.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/yeastNagalakshmi_0.99.4.tgz hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE Package: yeastRNASeq Version: 0.0.6 Depends: R (>= 2.4) Suggests: Biobase, ShortRead, IRanges License: GPL Title: Yeast RNA-Seq Experimental Data from Lee et al. 2008 Description: A selection of RNA-Seq data from a yeast transcriptome experiment. biocViews: ExperimentData, Yeast, RNAseqData Author: James H. Bullard and Kasper D. Hansen Maintainer: J. Bullard MD5sum: ae4ee1b9a50e2ced84ac41c0793ce7aa source.ver: src/contrib/yeastRNASeq_0.0.6.tar.gz win.binary.ver: bin/windows/contrib/2.15/yeastRNASeq_0.0.6.zip mac.binary.leopard.ver: bin/macosx/leopard/contrib/2.15/yeastRNASeq_0.0.6.tgz vignettes: vignettes/yeastRNASeq/inst/doc/yeastRNASeq.pdf vignetteTitles: An overview of yeastRNASeq hasREADME: FALSE hasNEWS: FALSE hasINSTALL: FALSE hasLICENSE: FALSE