Ycarus Gentoo ebuild

roverlay

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sci-BIOC

ABarray : Microarray QA and statistical da... (see metadata) ( )

ACME : Algorithms for Calculating Micro... (see metadata) ( )

ADaCGH2 : Analysis of big data from aCGH e... (see metadata) ( )

AGDEX : Agreement of Differential Expression Analysis ( )

ALL : A data package ( )

ALLMLL : A subset of arrays from a large ... (see metadata) ( )

ARRmData : Example dataset for normalizatio... (see metadata) ( )

ARRmNormalization : Adaptive Robust Regression norma... (see metadata) ( )

ASEB : Predict Acetylated Lysine Sites ( )

ASSET : An R package for subset-based as... (see metadata) ( )

AffyCompatible : Affymetrix GeneChip software compatibility ( )

AffyExpress : Affymetrix Quality Assessment and Analysis Tool ( )

AffyRNADegradation : Analyze and correct probe positi... (see metadata) ( )

AffyTiling : Easy extraction of individual pr... (see metadata) ( )

AffymetrixDataTestFiles : Affymetrix data files (CEL, CDF,... (see metadata) ( )

Agi4x44PreProcess : PreProcessing of Agilent 4x44 array data ( )

AgiMicroRna : Processing and Differential Expr... (see metadata) ( )

AllelicImbalance : Investigates allele specific expression ( )

AmpAffyExample : Example of Amplified Data ( )

AnnotationDbi : Annotation Database Interface ( )

AnnotationForge : Code for Building Annotation Database Packages ( )

AnnotationFuncs : Annotation translation functions ( )

AnnotationHub : A client for retrieving Biocondu... (see metadata) ( )

ArrayExpress : Access the ArrayExpress Microarr... (see metadata) ( )

ArrayExpressHTS : ArrayExpress High Throughput Seq... (see metadata) ( )

ArrayTV : Implementation of wave correction for arrays ( )

ArrayTools : geneChip Analysis Package ( )

BAC : Bayesian Analysis of Chip-chip experiment ( )

BADER : Bayesian Analysis of Differentia... (see metadata) ( )

BAGS : A Bayesian Approach for Geneset Selection ( )

BCRANK : Predicting binding site consensu... (see metadata) ( )

BGmix : Bayesian models for differential gene expression ( )

BHC : Bayesian Hierarchical Clustering ( )

BRAIN : Baffling Recursive Algorithm for... (see metadata) ( )

BSgenome : Infrastructure for Biostrings-ba... (see metadata) ( )

BSgenome_Alyrata_JGI_v1 : Arabidopsis lyrata full genome (JGI version V1.0) ( )

BSgenome_Amellifera_BeeBase_assembly4 : Apis mellifera (Honey Bee) full ... (see metadata) ( )

BSgenome_Amellifera_UCSC_apiMel2 : Apis mellifera (Honey Bee) full ... (see metadata) ( )

BSgenome_Athaliana_TAIR_04232008 : Arabidopsis thaliana full genome... (see metadata) ( )

BSgenome_Athaliana_TAIR_TAIR9 : Arabidopsis thaliana full genome (TAIR9) ( )

BSgenome_Btaurus_UCSC_bosTau3 : Bos taurus (Cow) full genome (UC... (see metadata) ( )

BSgenome_Btaurus_UCSC_bosTau4 : Bos taurus (Cow) full genome (UC... (see metadata) ( )

BSgenome_Btaurus_UCSC_bosTau6 : Bos taurus (Cow) full genome (UC... (see metadata) ( )

BSgenome_Celegans_UCSC_ce10 : Caenorhabditis elegans (Worm) fu... (see metadata) ( )

BSgenome_Celegans_UCSC_ce2 : Caenorhabditis elegans (Worm) fu... (see metadata) ( )

BSgenome_Celegans_UCSC_ce6 : Caenorhabditis elegans (Worm) fu... (see metadata) ( )

BSgenome_Cfamiliaris_UCSC_canFam2 : Canis lupus familiaris full geno... (see metadata) ( )

BSgenome_Cfamiliaris_UCSC_canFam3 : Canis lupus familiaris (Dog) ful... (see metadata) ( )

BSgenome_Dmelanogaster_UCSC_dm2 : Drosophila melanogaster (Fly) fu... (see metadata) ( )

BSgenome_Dmelanogaster_UCSC_dm3 : Drosophila melanogaster (Fly) fu... (see metadata) ( )

BSgenome_Drerio_UCSC_danRer5 : Danio rerio (Zebrafish) full gen... (see metadata) ( )

BSgenome_Drerio_UCSC_danRer6 : Danio rerio (Zebrafish) full gen... (see metadata) ( )

BSgenome_Drerio_UCSC_danRer7 : Danio rerio (Zebrafish) full gen... (see metadata) ( )

BSgenome_Ecoli_NCBI_20080805 : Escherichia coli full genomes ( )

BSgenome_Gaculeatus_UCSC_gasAcu1 : Gasterosteus aculeatus (Stickleb... (see metadata) ( )

BSgenome_Ggallus_UCSC_galGal3 : Gallus gallus (Chicken) full gen... (see metadata) ( )

BSgenome_Ggallus_UCSC_galGal4 : Gallus gallus (Chicken) full gen... (see metadata) ( )

BSgenome_Hsapiens_UCSC_hg17 : Homo sapiens (Human) full genome... (see metadata) ( )

BSgenome_Hsapiens_UCSC_hg18 : Homo sapiens (Human) full genome... (see metadata) ( )

BSgenome_Hsapiens_UCSC_hg19 : Homo sapiens (Human) full genome... (see metadata) ( )

BSgenome_Mmulatta_UCSC_rheMac2 : Macaca mulatta (Rhesus) full gen... (see metadata) ( )

BSgenome_Mmulatta_UCSC_rheMac3 : Macaca mulatta (Rhesus) full gen... (see metadata) ( )

BSgenome_Mmusculus_UCSC_mm10 : Mus musculus (Mouse) full genome... (see metadata) ( )

BSgenome_Mmusculus_UCSC_mm8 : Mus musculus (Mouse) full genome... (see metadata) ( )

BSgenome_Mmusculus_UCSC_mm9 : Mus musculus (Mouse) full genome... (see metadata) ( )

BSgenome_Osativa_MSU_MSU7 : Oryza sativa full genome (MSU7) ( )

BSgenome_Ptroglodytes_UCSC_panTro2 : Pan troglodytes (Chimp) full gen... (see metadata) ( )

BSgenome_Ptroglodytes_UCSC_panTro3 : Pan troglodytes (Chimp) full gen... (see metadata) ( )

BSgenome_Rnorvegicus_UCSC_rn4 : Rattus norvegicus (Rat) full gen... (see metadata) ( )

BSgenome_Rnorvegicus_UCSC_rn5 : Rattus norvegicus (Rat) full gen... (see metadata) ( )

BSgenome_Scerevisiae_UCSC_sacCer1 : Saccharomyces cerevisiae (Yeast)... (see metadata) ( )

BSgenome_Scerevisiae_UCSC_sacCer2 : Saccharomyces cerevisiae (Yeast)... (see metadata) ( )

BSgenome_Scerevisiae_UCSC_sacCer3 : Saccharomyces cerevisiae (Yeast)... (see metadata) ( )

BSgenome_Tgondii_ToxoDB_7_0 : Toxoplasma gondii ME49 (ToxoDB-7.0) ( )

BUS : Gene network reconstruction ( )

BaseSpaceR : R SDK for BaseSpace RESTful API ( )

BayesPeak : Bayesian Analysis of ChIP-seq Data ( )

BeadArrayUseCases : Analysing Illumina BeadArray exp... (see metadata) ( )

BeadDataPackR : Compression of Illumina BeadArray data ( )

BiRewire : High-performing routines for the... (see metadata) ( )

BiSeq : Processing and analyzing bisulfite sequencing data ( )

BicARE : Biclustering Analysis and Results Exploration ( )

BioNet : Routines for the functional anal... (see metadata) ( )

BioSeqClass : Classification for Biological Sequences ( )

Biobase : Biobase: Base functions for Bioconductor ( )

BiocCaseStudies : BiocCaseStudies: Support for the... (see metadata) ( )

BiocGenerics : Generic functions for Bioconductor ( )

BiocInstaller : Install/Update Bioconductor and CRAN Packages ( )

BiocParallel : Bioconductor facilities for parallel evaluation ( )

BiocStyle : Standard styles for vignettes an... (see metadata) ( )

Biostrings : String objects representing biol... (see metadata) ( )

BitSeq : Transcript expression inference ... (see metadata) ( )

BrainStars : query gene expression data and p... (see metadata) ( )

BufferedMatrix : A matrix data storage object hel... (see metadata) ( )

BufferedMatrixMethods : Microarray Data related methods ... (see metadata) ( )

CALIB : Calibration model for estimating... (see metadata) ( )

CAMERA : Collection of annotation related... (see metadata) ( )

CCl4 : Carbon Tetrachloride (CCl4) treated hepatocytes ( )

CGEN : An R package for analysis of cas... (see metadata) ( )

CGHbase : CGHbase: Base functions and clas... (see metadata) ( )

CGHcall : Calling aberrations for array CGH tumor profiles. ( )

CGHnormaliter : Normalization of array CGH data ... (see metadata) ( )

CGHregions : Dimension Reduction for Array CG... (see metadata) ( )

CLL : A Package for CLL Gene Expression Data ( )

CMA : Synthesis of microarray-based classification ( )

CNAnorm : A normalization method for Copy ... (see metadata) ( )

CNTools : Convert segment data into a regi... (see metadata) ( )

CNVrd2 : CNVrd2: a read depth-based metho... (see metadata) ( )

CNVtools : A package to test genetic associ... (see metadata) ( )

CORREP : Multivariate Correlation Estimat... (see metadata) ( )

CRImage : CRImage a package to classify ce... (see metadata) ( )

CSAR : Statistical tools for the analys... (see metadata) ( )

CSSP : ChIP-Seq Statistical Power ( )

CancerMutationAnalysis : Cancer mutation analysis ( )

Category : Category Analysis ( )

CexoR : An R package to uncover high-res... (see metadata) ( )

ChAMP : Chip Analysis Methylation Pipeli... (see metadata) ( )

ChAMPdata : Data Packages for ChAMP package ( )

ChIPXpress : ChIPXpress: enhanced transcripti... (see metadata) ( )

ChIPXpressData : ChIPXpress Pre-built Databases ( )

ChIPseqR : Identifying Protein Binding Site... (see metadata) ( )

ChIPsim : Simulation of ChIP-seq experiments ( )

ChemmineOB : R interface to a subset of OpenB... (see metadata) ( )

ChemmineR : Cheminformatics Toolkit for R ( )

ChromHeatMap : Heat map plotting by genome coordinate ( )

Clonality : Clonality testing ( )

CoCiteStats : Different test statistics based on co-citation. ( )

ConnectivityMap : Functional connections between d... (see metadata) ( )

ConsensusClusterPlus : ConsensusClusterPlus ( )

CorMut : Detect the correlated mutations ... (see metadata) ( )

Cormotif : Correlation Motif Fit ( )

DART : Denoising Algorithm based on Rel... (see metadata) ( )

DASiR : Distributed Annotation System in R ( )

DAVIDQuery : Retrieval from the DAVID bioinfo... (see metadata) ( )

DBChIP : Differential Binding of Transcri... (see metadata) ( )

DECIPHER : Database Enabled Code for Ideal ... (see metadata) ( )

DEDS : Differential Expression via Dist... (see metadata) ( )

DEGseq : Identify Differentially Expresse... (see metadata) ( )

DESeq : Differential gene expression ana... (see metadata) ( )

DESeq2 : Differential gene expression ana... (see metadata) ( )

DEXSeq : Inference of differential exon usage in RNA-Seq ( )

DFP : Gene Selection ( )

DLBCL : Diffuse large B-cell lymphoma expression data ( )

DNAcopy : DNA copy number data analysis ( )

DNaseR : DNase I footprinting analysis of DNase-seq data ( )

DOSE : Disease Ontology Semantic and Enrichment analysis ( )

DO_db : A set of annotation maps describ... (see metadata) ( )

DREAM4 : Synthetic Expression Data for Ge... (see metadata) ( )

DSS : Dispersion shrinakge for sequencing data. ( )

DTA : Dynamic Transcriptome Analysis ( )

DeSousa2013 : Poor prognosis colon cancer is d... (see metadata) ( )

DeconRNASeq : Deconvolution of Heterogeneous T... (see metadata) ( )

DiffBind : Differential Binding Analysis of... (see metadata) ( )

DirichletMultinomial : Dirichlet-Multinomial Mixture Mo... (see metadata) ( )

DonaPLLP2013 : Supplementary data package for D... (see metadata) ( )

DriverNet : Drivernet: uncovering somatic dr... (see metadata) ( )

DrugVsDisease : Comparison of disease and drug p... (see metadata) ( )

DrugVsDiseasedata : Drug versus Disease Data ( )

DvDdata : Drug versus Disease Data ( )

DynDoc : Dynamic document tools ( )

EBImage : Image processing toolbox for R ( )

EBSeq : An R package for gene and isofor... (see metadata) ( )

EBarrays : Unified Approach for Simultaneou... (see metadata) ( )

EBcoexpress : EBcoexpress for Differential Co-... (see metadata) ( )

EDASeq : Exploratory Data Analysis and No... (see metadata) ( )

ENVISIONQuery : Retrieval from the ENVISION bioi... (see metadata) ( )

EasyqpcR : EasyqpcR for low-throughput real... (see metadata) ( )

EatonEtAlChIPseq : ChIP-seq data of ORC-binding sit... (see metadata) ( )

ExiMiR : R functions for the normalizatio... (see metadata) ( )

ExpressionView : Visualize biclusters identified ... (see metadata) ( )

FANTOM3and4CAGE : CAGE data from FANTOM3 and FANTOM4 projects ( )

FDb_FANTOM4_promoters_hg19 : Annotation package for FANTOM4 p... (see metadata) ( )

FDb_UCSC_snp135common_hg19 : UCSC common SNPs track for dbSNP build 135 ( )

FDb_UCSC_snp137common_hg19 : UCSC common SNPs track for dbSNP build 137 ( )

FDb_UCSC_tRNAs : Annotation package for FeatureDb object(s) ( )

FGNet : Functional gene networks derived... (see metadata) ( )

Fletcher2013a : Gene expression data from breast... (see metadata) ( )

Fletcher2013b : Master regulators of FGFR2 signa... (see metadata) ( )

FlowSorted_Blood_450k : Illumina HumanMethylation data o... (see metadata) ( )

FunciSNP_data : Various data sets for use with t... (see metadata) ( )

GEOmetadb : A compilation of metadata from NCBI GEO ( )

GEOquery : Get data from NCBI Gene Expression Omnibus (GEO) ( )

GEOsubmission : Prepares microarray data for submission to GEO ( )

GEWIST : Gene Environment Wide Interaction Search Threshold ( )

GGBase : GGBase infrastructure for geneti... (see metadata) ( )

GGHumanMethCancerPanelv1_db : Illumina Golden Gate Human Methy... (see metadata) ( )

GGdata : all 90 hapmap CEU samples, 47K expression, 4mm SNP ( )

GGtools : software and data for analyses i... (see metadata) ( )

GLAD : Gain and Loss Analysis of DNA ( )

GOSemSim : GO-terms Semantic Similarity Measures ( )

GOSim : Computation of functional simila... (see metadata) ( )

GO_db : A set of annotation maps describ... (see metadata) ( )

GOstats : Tools for manipulating GO and microarrays. ( )

GRENITS : Gene Regulatory Network Inferenc... (see metadata) ( )

GSEABase : Gene set enrichment data structures and methods ( )

GSEAlm : Linear Model Toolset for Gene Se... (see metadata) ( )

GSRI : Gene Set Regulation Index ( )

GSVA : Gene Set Variation Analysis for ... (see metadata) ( )

GSVAdata : Data employed in the vignette of the GSVA package ( )

GWASTools : Tools for Genome Wide Association Studies ( )

GWASdata : Data used in the examples and vi... (see metadata) ( )

GeneAnswers : Integrated Interpretation of Genes ( )

GeneExpressionSignature : Gene Expression Signature based Similarity Metric ( )

GeneGA : Design gene based on both mRNA s... (see metadata) ( )

GeneMeta : MetaAnalysis for High Throughput Experiments ( )

GeneNetworkBuilder : Build Regulatory Network from Ch... (see metadata) ( )

GeneRegionScan : GeneRegionScan ( )

GeneSelectMMD : Gene selection based on the marg... (see metadata) ( )

GeneSelector : Stability and Aggregation of ranked gene lists ( )

GeneticsDesign : Functions for designing genetics studies ( )

GeneticsPed : Pedigree and genetic relationship functions ( )

GenomeGraphs : Plotting genomic information from Ensembl ( )

GenomicFeatures : Tools for making and manipulatin... (see metadata) ( )

GenomicRanges : Representation and manipulation ... (see metadata) ( )

Genominator : Analyze, manage and store genomic data ( )

GlobalAncova : Calculates a global test for dif... (see metadata) ( )

GraphAT : Graph Theoretic Association Tests ( )

GraphAlignment : GraphAlignment ( )

GraphPAC : Identification of Mutational Clu... (see metadata) ( )

Gviz : Plotting data and annotation inf... (see metadata) ( )

HCsnip : Semi-supervised adaptive-height ... (see metadata) ( )

HD2013SGI : Mapping genetic interactions in ... (see metadata) ( )

HEEBOdata : HEEBO set and HEEBO controls. ( )

HELP : Tools for HELP data analysis ( )

HEM : Heterogeneous error model for id... (see metadata) ( )

HIVcDNAvantWout03 : T cell line infections with HIV-1 LAI (BRU) ( )

HMMcopy : Copy number prediction with corr... (see metadata) ( )

HTSFilter : Filter replicated high-throughpu... (see metadata) ( )

HTSanalyzeR : Gene set over-representation, en... (see metadata) ( )

HTSeqGenie : A NGS analysis pipeline. ( )

HTqPCR : Automated analysis of high-throughput qPCR data ( )

Harshlight : A corrective make-up program for microarray chips ( )

Heatplus : Heatmaps with row and/or column ... (see metadata) ( )

HiTC : High Throughput Chromosome Confo... (see metadata) ( )

Hiiragi2013 : Cell-to-cell expression variabil... (see metadata) ( )

HilbertVis : Hilbert curve visualization ( )

HilbertVisGUI : HilbertVisGUI ( )

Homo_sapiens : Annotation package for the Homo.sapiens object ( )

Hs6UG171_db : A package containing metadata for Hs6UG171 arrays ( )

HsAgilentDesign026652_db : Agilent Chips that use Agilent d... (see metadata) ( )

HuExExonProbesetLocation : Probe sequence data for microarrays of type HuEx ( )

HuExExonProbesetLocationHg18 : Exon-level probeset chromosome l... (see metadata) ( )

HuExExonProbesetLocationHg19 : Exon-level probeset chromosome l... (see metadata) ( )

HuO22_db : FHCRC Genomics Shared Resource H... (see metadata) ( )

HybridMTest : Hybrid Multiple Testing ( )

IPPD : Isotopic peak pattern deconvolut... (see metadata) ( )

IRanges : Infrastructure for manipulating ... (see metadata) ( )

ITALICS : ITALICS ( )

ITALICSData : ITALICSData ( )

Icens : NPMLE for Censored and Truncated Data ( )

IdMappingAnalysis : ID Mapping Analysis ( )

IdMappingRetrieval : ID Mapping Data Retrieval ( )

Illumina450ProbeVariants_db : Annotation Package combining var... (see metadata) ( )

IlluminaDataTestFiles : Illumina microarray files (IDAT) for testing ( )

IlluminaHumanMethylation27k_db : Illumina Illumina Human Methylat... (see metadata) ( )

IlluminaHumanMethylation27kmanifest : Annotation for Illuminas 27k methylation arrays ( )

IlluminaHumanMethylation450k_db : Illumina Human Methylation 450k annotation data ( )

IlluminaHumanMethylation450kanno_ilmn12_hg19 : Annotation for Illuminas 450k methylation arrays ( )

IlluminaHumanMethylation450kmanifest : Annotation for Illuminas 450k methylation arrays ( )

IlluminaHumanMethylation450kprobe : Probe sequence data for microarr... (see metadata) ( )

IsoGeneGUI : A graphical user interface to co... (see metadata) ( )

Iyer517 : exprSets for Iyer, Eisen et all 1999 Science paper ( )

JASPAR2014 : Data package for JASPAR ( )

JazaeriMetaData_db : A data package containing annota... (see metadata) ( )

KCsmart : Multi sample aCGH analysis packa... (see metadata) ( )

KEGGREST : Client-side REST access to KEGG ( )

KEGG_db : A set of annotation maps for KEGG ( )

KEGGdzPathwaysGEO : KEGG Disease Datasets from GEO ( )

KEGGgraph : KEGGgraph: A graph approach to K... (see metadata) ( )

KEGGprofile : An annotation and visualization ... (see metadata) ( )

LAPOINTE_db : A package containing metadata for LAPOINTE arrays ( )

LBE : Estimation of the false discovery rate. ( )

LMGene : LMGene Software for Data Transfo... (see metadata) ( )

LPE : Methods for analyzing microarray... (see metadata) ( )

LPEadj : A correction of the local pooled... (see metadata) ( )

LVSmiRNA : LVS normalization for Agilent miRNA data ( )

LiebermanAidenHiC2009 : Selected data from the HiC paper... (see metadata) ( )

LiquidAssociation : LiquidAssociation ( )

LungCancerACvsSCCGEO : A lung cancer dataset that can b... (see metadata) ( )

LungCancerLines : Reads from Two Lung Cancer Cell Lines ( )

MANOR : CGH Micro-Array NORmalization ( )

MAQCsubset : Experimental Data Package: MAQCsubset ( )

MAQCsubsetAFX : MAQC data subset for the Affymetrix platform ( )

MAQCsubsetILM : MAQC data subset for the Illumina platform ( )

MBCB : MBCB (Model-based Background Cor... (see metadata) ( )

MCRestimate : Misclassification error estimati... (see metadata) ( )

MEDIPS : (MeD)IP-seq data analysis ( )

MEDIPSData : Example data for the MEDIPS package. ( )

MEDME : Modelling Experimental Data from MeDIP Enrichment ( )

MEEBOdata : MEEBO set and MEEBO controls. ( )

MLInterfaces : Uniform interfaces to R machine ... (see metadata) ( )

MLP : MLP ( )

MMDiff : Statistical Testing for ChIP-Seq data sets ( )

MMDiffBamSubset : Example ChIP-Seq data for the MMDiff package ( )

MSnbase : MSnbase: Base Functions and Clas... (see metadata) ( )

MSstats : Protein Significance Analysis in... (see metadata) ( )

MVCClass : Model-View-Controller (MVC) Classes ( )

MantelCorr : Compute Mantel Cluster Correlations ( )

MassArray : Analytical Tools for MassArray Data ( )

MassSpecWavelet : Mass spectrum processing by wave... (see metadata) ( )

MeasurementError_cor : Measurement Error model estimate... (see metadata) ( )

MergeMaid : Merge Maid ( )

MethylSeekR : Segmentation of Bis-seq data ( )

Mfuzz : Soft clustering of time series g... (see metadata) ( )

MiChip : MiChip Parsing and Summarizing Functions ( )

MiPP : Misclassification Penalized Post... (see metadata) ( )

MiRaGE : MiRNA Ranking by Gene Expression ( )

MinimumDistance : A package for de novo CNV detect... (see metadata) ( )

MmAgilentDesign026655_db : Agilent Chips that use Agilent d... (see metadata) ( )

MmPalateMiRNA : Murine Palate miRNA Expression Analysis ( )

MoExExonProbesetLocation : Probe sequence data for microarrays of type MoEx ( )

MotIV : Motif Identification and Validation ( )

MotifDb : An Annotated Collection of Prote... (see metadata) ( )

Mu15v1_db : FHCRC Genomics Shared Resource M... (see metadata) ( )

Mu22v3_db : FHCRC Genomics Shared Resource M... (see metadata) ( )

Mulcom : Calculates Mulcom test ( )

Mulder2012 : Predicting functional networks a... (see metadata) ( )

Mus_musculus : Annotation package for the Mus.musculus object ( )

NCIgraph : Pathways from the NCI Pathways Database ( )

NCIgraphData : Data for the NCIgraph software package ( )

NOISeq : Exploratory analysis and differe... (see metadata) ( )

NTW : Predict gene network using an Or... (see metadata) ( )

NarrowPeaks : Analysis of Variation in ChIP-se... (see metadata) ( )

NetSAM : Network Seriation And Modularization ( )

Neve2006 : expression and CGH data on breas... (see metadata) ( )

NormqPCR : Functions for normalisation of RT-qPCR data ( )

Norway981_db : Norway981 http://genome-www5.sta... (see metadata) ( )

NuPoP : An R package for nucleosome positioning prediction ( )

OCplus : Operating characteristics plus s... (see metadata) ( )

OLIN : Optimized local intensity-depend... (see metadata) ( )

OLINgui : Graphical user interface for OLIN ( )

OSAT : OSAT: Optimal Sample Assignment Tool ( )

OTUbase : Provides structure and functions... (see metadata) ( )

OmicCircos : High-quality circular visualization of omic data ( )

OperonHumanV3_db : FHCRC Nelson Lab OperonHumanV3 A... (see metadata) ( )

OrderedList : Similarities of Ordered Gene Lists ( )

OrganismDbi : Software to enable the smooth in... (see metadata) ( )

OutlierD : Outlier detection using quantile... (see metadata) ( )

PADOG : Pathway Analysis with Down-weigh... (see metadata) ( )

PANR : Posterior association networks a... (see metadata) ( )

PANTHER_db : A set of annotation maps describ... (see metadata) ( )

PAnnBuilder : Protein annotation data package builder ( )

PFAM_db : A set of protein ID mappings for PFAM ( )

PGSEA : Parametric Gene Set Enrichment Analysis ( )

PICS : Probabilistic inference of ChIP-seq ( )

PING : Probabilistic inference for Nucl... (see metadata) ( )

PLPE : Local Pooled Error Test for Diff... (see metadata) ( )

POCRCannotation_db : A package containing metadata for POCRC arrays ( )

PREDA : Position RElated Data Anlysis ( )

PREDAsampledata : expression and copy number data ... (see metadata) ( )

PROMISE : PRojection Onto the Most Interes... (see metadata) ( )

PROcess : Ciphergen SELDI-TOF Processing ( )

PSICQUIC : Protemics Standard Initiative Co... (see metadata) ( )

PWMEnrich : PWM enrichment analysis ( )

PWMEnrich_Dmelanogaster_background : D. melanogaster background for PWMEnrich ( )

PWMEnrich_Hsapiens_background : H. sapiens background for PWMEnrich ( )

PWMEnrich_Mmusculus_background : M. musculus background for PWMEnrich ( )

PartheenMetaData_db : PartheenMetaData http://swegene.... (see metadata) ( )

PathNet : An R package for pathway analysi... (see metadata) ( )

PathNetData : Experimental data for the PathNet package ( )

PolyPhen_Hsapiens_dbSNP131 : PolyPhen Predictions for Homo sa... (see metadata) ( )

ProCoNA : Protein co-expression network analysis (ProCoNA). ( )

ProData : SELDI-TOF data of Breast cancer samples ( )

QuasR : Quantify and Annotate Short Reads in R ( )

RBGL : An interface to the BOOST graph library ( )

RBioinf : RBioinf ( )

RCASPAR : A package for survival time pred... (see metadata) ( )

RCytoscape : Display and manipulate graphs in Cytoscape ( )

RDAVIDWebService : An R Package for retrieving data... (see metadata) ( )

RDRToolbox : A package for nonlinear dimensio... (see metadata) ( )

RGalaxy : Make an R function available in ... (see metadata) ( )

RIPSeeker : RIPSeeker: a statistical package... (see metadata) ( )

RIPSeekerData : test data for RIPSeeker ( )

RMAPPER : R interface to the MAPPER databa... (see metadata) ( )

RMassBankData : Test dataset for RMassBank ( )

RNASeqPower : Sample size for RNAseq studies ( )

RNAinteract : Estimate Pairwise Interactions f... (see metadata) ( )

RNAinteractMAPK : Mapping of Signalling Networks t... (see metadata) ( )

RNAither : Statistical analysis of high-thr... (see metadata) ( )

RNAseqData_HNRNPC_bam_chr14 : Aligned reads from RNAseq experi... (see metadata) ( )

RNAseqData_HeLa_bam_chr14 : DEPRECATED (was renamed RNAseqDa... (see metadata) ( )

ROC : utilities for ROC, with uarray focus ( )

RPA : RPA: Robust Probabilistic Averag... (see metadata) ( )

RRHO : Inference on agreement between two lists ( )

RSVSim : RSVSim: an R/Bioconductor packag... (see metadata) ( )

RTCA : Open-source toolkit to analyse d... (see metadata) ( )

RTN : Reconstruction of transcriptiona... (see metadata) ( )

RTopper : This package is designed to perf... (see metadata) ( )

RWebServices : Expose R functions as web servic... (see metadata) ( )

RaExExonProbesetLocation : Probe sequence data for microarrays of type RaEx ( )

RamiGO : AmiGO visualize R interface ( )

RankProd : Rank Product method for identify... (see metadata) ( )

Rattus_norvegicus : Annotation package for the Rattu... (see metadata) ( )

RbcBook1 : Support for Springer monograph on Bioconductor ( )

Rbowtie : R bowtie wrapper ( )

Rcade : R-based analysis of ChIP-seq And... (see metadata) ( )

Rchemcpp : Similarity measures for chemical compounds ( )

Rdisop : Decomposition of Isotopic Patterns ( )

ReQON : Recalibrating Quality Of Nucleotides ( )

ReactomePA : Reactome Pathway Analysis ( )

ReadqPCR : Read qPCR data ( )

RedeR : Interactive visualization and ma... (see metadata) ( )

RefPlus : A function set for the Extrapola... (see metadata) ( )

Repitools : Epigenomic tools ( )

ReportingTools : Tools for making reports in various formats ( )

Resourcerer : Reads annotation data from TIGR ... (see metadata) ( )

RforProteomics : Companion package to the Using R... (see metadata) ( )

Ringo : R Investigation of ChIP-chip Oligoarrays ( )

Risa : Converting experimental metadata... (see metadata) ( )

Rmagpie : MicroArray Gene-expression-based... (see metadata) ( )

RmiR : Package to work with miRNAs and ... (see metadata) ( )

RmiR_Hs_miRNA : Various databases of microRNA Targets ( )

RmiR_hsa : Various databases of microRNA Targets ( )

RnAgilentDesign028282_db : Agilent Chips that use Agilent d... (see metadata) ( )

RnaSeqTutorial : RNA-Seq Tutorial (EBI Cambridge UK, October 2011) ( )

Roberts2005Annotation_db : Roberts2005Annotation Annotation... (see metadata) ( )

Roleswitch : Infer miRNA-mRNA interactions us... (see metadata) ( )

Rolexa : Statistical analysis of Solexa sequencing data ( )

RpsiXML : R interface to PSI-MI 2.5 files ( )

Rsamtools : Binary alignment (BAM), variant ... (see metadata) ( )

Rsubread : Rsubread: high-performance read ... (see metadata) ( )

Rtreemix : Rtreemix: Mutagenetic trees mixture models. ( )

SAGx : Statistical Analysis of the GeneChip ( )

SANTA : Spatial Analysis of Network Associations ( )

SBMLR : SBML-R Interface and Analysis Tools ( )

SCAN_UPC : Single-channel array normalizati... (see metadata) ( )

SHDZ_db : SHDZ http://genome-www5.stanford... (see metadata) ( )

SIFT_Hsapiens_dbSNP132 : SIFT Predictions for Homo sapiens dbSNP build 132 ( )

SIM : Integrated Analysis on two human genomic datasets ( )

SJava : The Omegahat interface for R and Java. ( )

SLqPCR : Functions for analysis of real-t... (see metadata) ( )

SMAP : A Segmental Maximum A Posteriori... (see metadata) ( )

SNAData : Social Networks Analysis Data Examples ( )

SNAGEE : Signal-to-Noise applied to Gene ... (see metadata) ( )

SNAGEEdata : SNAGEE data ( )

SNPchip : Visualizations for copy number alterations ( )

SNPlocs_Hsapiens_dbSNP_20090506 : SNP locations for Homo sapiens (dbSNP Build 130) ( )

SNPlocs_Hsapiens_dbSNP_20100427 : SNP locations for Homo sapiens (dbSNP BUILD 131) ( )

SNPlocs_Hsapiens_dbSNP_20101109 : SNP locations for Homo sapiens (dbSNP Build 132) ( )

SNPlocs_Hsapiens_dbSNP_20110815 : SNP locations for Homo sapiens (dbSNP Build 134) ( )

SNPlocs_Hsapiens_dbSNP_20111119 : SNP locations for Homo sapiens (dbSNP Build 135) ( )

SNPlocs_Hsapiens_dbSNP_20120608 : SNP locations for Homo sapiens (dbSNP Build 137) ( )

SPEM : S-system parameter estimation method ( )

SPIA : Signaling Pathway Impact Analysi... (see metadata) ( )

SQUADD : Add-on of the SQUAD Software ( )

SRAdb : A compilation of metadata from NCBI SRA and tools ( )

SSPA : General Sample Size and Power An... (see metadata) ( )

STRINGdb : STRINGdb (Search Tool for the Re... (see metadata) ( )

SamSPECTRAL : Identifies cell population in flow cytometry data. ( )

SeqArray : Big Data Management of Genome-wi... (see metadata) ( )

SeqGSEA : Gene Set Enrichment Analysis (GS... (see metadata) ( )

SeqVarTools : Tools for variant data ( )

ShortRead : Classes and methods for high-thr... (see metadata) ( )

SigFuge : SigFuge ( )

SimBindProfiles : Similar Binding Profiles ( )

SomatiCA : SomatiCA: identifying, character... (see metadata) ( )

SomatiCAData : An example cancer whole genome s... (see metadata) ( )

SomaticCancerAlterations : Somatic Cancer Alterations ( )

SpacePAC : Identification of Mutational Clu... (see metadata) ( )

SpeCond : Condition specific detection from expression data ( )

SpikeIn : Affymetrix Spike-In Experiment Data ( )

SpikeInSubset : Part of Affymetrixs Spike-In Experiment Data ( )

Starr : Simple tiling array analysis of ... (see metadata) ( )

Streamer : Enabling stream processing of large files ( )

SwimR : SwimR: A Suite of Analytical Too... (see metadata) ( )

TBX20BamSubset : Subset of BAM files from the TBX20 experiment ( )

TCC : TCC: Differential expression ana... (see metadata) ( )

TCGAMethylation450k : The Cancer Genome Atlas Illumina... (see metadata) ( )

TEQC : Quality control for target capture experiments ( )

TFBSTools : Software package for TFBS ( )

TSSi : Transcription Start Site Identification ( )

TargetScore : TargetScore: Infer microRNA targ... (see metadata) ( )

TargetScoreData : TargetScoreData ( )

TargetSearch : A package for the analysis of GC... (see metadata) ( )

TargetSearchData : Example GC-MS data for TargetSearch Package ( )

TransView : Read density map construction an... (see metadata) ( )

TurboNorm : A fast scatterplot smoother suit... (see metadata) ( )

TxDb_Athaliana_BioMart_plantsmart10 : Annotation package for the Athal... (see metadata) ( )

TxDb_Athaliana_BioMart_plantsmart12 : Annotation package for TranscriptDb object(s) ( )

TxDb_Athaliana_BioMart_plantsmart14 : Annotation package for TranscriptDb object(s) ( )

TxDb_Athaliana_BioMart_plantsmart16 : Annotation package for TranscriptDb object(s) ( )

TxDb_Athaliana_BioMart_plantsmart19 : Annotation package for TranscriptDb object(s) ( )

TxDb_Celegans_UCSC_ce6_ensGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Dmelanogaster_UCSC_dm3_ensGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Hsapiens_UCSC_hg18_knownGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Hsapiens_UCSC_hg19_knownGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Hsapiens_UCSC_hg19_lincRNAsTranscripts : Annotation package for TranscriptDb object(s) ( )

TxDb_Mmusculus_UCSC_mm10_ensGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Mmusculus_UCSC_mm10_knownGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Mmusculus_UCSC_mm9_knownGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Rnorvegicus_UCSC_rn4_ensGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Rnorvegicus_UCSC_rn5_refGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Scerevisiae_UCSC_sacCer2_sgdGene : Annotation package for TranscriptDb object(s) ( )

TxDb_Scerevisiae_UCSC_sacCer3_sgdGene : Annotation package for TranscriptDb object(s) ( )

TypeInfo : Optional Type Specification Prototype ( )

UniProt_ws : R Interface to UniProt Web Services ( )

VanillaICE : A Hidden Markov Model for high t... (see metadata) ( )

VariantAnnotation : Annotation of Genetic Variants ( )

VariantTools : Tools for Working with Genetic Variants ( )

Vega : An R package for copy number data segmentation ( )

VegaMC : VegaMC: A Package Implementing a... (see metadata) ( )

XDE : XDE: a Bayesian hierarchical mod... (see metadata) ( )

XVector : Representation and manpulation o... (see metadata) ( )

XhybCasneuf : EBI/PSB cross-hybridisation study package ( )

a4 : Automated Affymetrix Array Analy... (see metadata) ( )

a4Base : Automated Affymetrix Array Analysis Base Package ( )

a4Classif : Automated Affymetrix Array Analy... (see metadata) ( )

a4Core : Automated Affymetrix Array Analysis Core Package ( )

a4Preproc : Automated Affymetrix Array Analy... (see metadata) ( )

a4Reporting : Automated Affymetrix Array Analy... (see metadata) ( )

aCGH : Classes and functions for Array ... (see metadata) ( )

adSplit : Annotation-Driven Clustering ( )

adme16cod_db : Codelink ADME Rat 16-Assay Bioar... (see metadata) ( )

affxparser : Affymetrix File Parsing SDK ( )

affy : Methods for Affymetrix Oligonucleotide Arrays ( )

affyContam : structured corruption of affymetrix cel file data ( )

affyILM : Linear Model of background subtr... (see metadata) ( )

affyPLM : Methods for fitting probe-level models ( )

affyPara : Parallelized preprocessing metho... (see metadata) ( )

affyQCReport : QC Report Generation for affyBatch objects ( )

affycomp : Graphics Toolbox for Assessment ... (see metadata) ( )

affycompData : affycomp data ( )

affycoretools : Functions useful for those doing... (see metadata) ( )

affydata : Affymetrix Data for Demonstration Purpose ( )

affyio : Tools for parsing Affymetrix data files ( )

affylmGUI : GUI for affy analysis using limma package ( )

affypdnn : Probe Dependent Nearest Neighbou... (see metadata) ( )

ag_db : Affymetrix Arabidopsis Genome Ar... (see metadata) ( )

agcdf : agcdf ( )

agilp : Agilent expression array processing package ( )

agprobe : Probe sequence data for microarrays of type ag ( )

altcdfenvs : alternative CDF environments (ak... (see metadata) ( )

ampliQueso : Analysis of amplicon enrichment panels ( )

annaffy : Annotation tools for Affymetrix ... (see metadata) ( )

annmap : Genome annotation and visualisat... (see metadata) ( )

annotate : Annotation for microarrays ( )

annotationTools : Annotate microarrays and perform... (see metadata) ( )

anopheles_db0 : Base Level Annotation databases for anopheles ( )

anota : ANalysis Of Translational Activity (ANOTA). ( )

antiProfiles : Implementation of gene expression anti-profiles ( )

antiProfilesData : Normal colon and cancer preproce... (see metadata) ( )

arabidopsis_db0 : Base Level Annotation databases for arabidopsis ( )

aroma_light : Light-weight methods for normali... (see metadata) ( )

arrayMvout : multivariate outlier detection f... (see metadata) ( )

arrayQuality : Assessing array quality on spotted arrays ( )

arrayQualityMetrics : Quality metrics on microarray data sets ( )

ath1121501_db : Affymetrix Arabidopsis ATH1 Geno... (see metadata) ( )

ath1121501cdf : ath1121501cdf ( )

ath1121501probe : Probe sequence data for microarr... (see metadata) ( )

attract : Methods to Find the Gene Express... (see metadata) ( )

barley1cdf : barley1cdf ( )

barley1probe : Probe sequence data for microarr... (see metadata) ( )

baySeq : Empirical Bayesian analysis of p... (see metadata) ( )

beadarray : Quality assessment and low-level... (see metadata) ( )

beadarrayExampleData : Example data for the beadarray package ( )

beadarraySNP : Normalization and reporting of I... (see metadata) ( )

beta7 : Rodriguez et al. (2004) Differen... (see metadata) ( )

betr : Identify differentially expresse... (see metadata) ( )

bgafun : BGAfun A method to identify spec... (see metadata) ( )

bgx : Bayesian Gene eXpression ( )

bigmemoryExtras : An extension of the bigmemory pa... (see metadata) ( )

bioDist : Different distance measures ( )

bioassayR : R library for Bioactivity analysis ( )

biocViews : Categorized views of R package repositories ( )

biomaRt : Interface to BioMart databases (... (see metadata) ( )

biomvRCNS : Copy Number study and Segmentati... (see metadata) ( )

biovizBase : Basic graphic utilities for visu... (see metadata) ( )

birta : Bayesian Inference of Regulation... (see metadata) ( )

bladderbatch : Bladder gene expression data ill... (see metadata) ( )

bovine_db : Affymetrix bovine annotation data (chip bovine) ( )

bovine_db0 : Base Level Annotation databases for bovine ( )

bovinecdf : bovinecdf ( )

bovineprobe : Probe sequence data for microarrays of type bovine ( )

breastCancerMAINZ : Gene expression dataset publishe... (see metadata) ( )

breastCancerNKI : Genexpression dataset published ... (see metadata) ( )

breastCancerTRANSBIG : Gene expression dataset publishe... (see metadata) ( )

breastCancerUNT : Gene expression dataset publishe... (see metadata) ( )

breastCancerUPP : Gene expression dataset publishe... (see metadata) ( )

breastCancerVDX : Gene expression datasets publish... (see metadata) ( )

bridge : Bayesian Robust Inference for Di... (see metadata) ( )

bronchialIL13 : time course experiment involving il13 ( )

bsseq : Analyze, manage and store bisulf... (see metadata) ( )

bsseqData : Example whole genome bisulfite d... (see metadata) ( )

bsubtiliscdf : bsubtiliscdf ( )

bsubtilisprobe : Probe sequence data for microarr... (see metadata) ( )

bumphunter : Bump Hunter ( )

cMAP : A data package containing annotation data for cMAP ( )

cMap2data : Connectivity Map (version 2) Data ( )

cancerclass : Development and validation of di... (see metadata) ( )

cancerdata : Development and validation of di... (see metadata) ( )

canine2_db : Affymetrix canine2 annotation data (chip canine2) ( )

canine2cdf : canine2cdf ( )

canine2probe : Probe sequence data for microarr... (see metadata) ( )

canine_db : Affymetrix canine annotation data (chip canine) ( )

canine_db0 : Base Level Annotation databases for canine ( )

caninecdf : caninecdf ( )

canineprobe : Probe sequence data for microarrays of type canine ( )

casper : Characterization of Alternative ... (see metadata) ( )

ccTutorial : Data package for ChIP-chip tutorial ( )

celegans_db : Affymetrix celegans annotation d... (see metadata) ( )

celeganscdf : celeganscdf ( )

celegansprobe : Probe sequence data for microarr... (see metadata) ( )

cellGrowth : Fitting cell population growth models ( )

cellHTS : Analysis of cell-based screens ( )

cellHTS2 : Analysis of cell-based screens -... (see metadata) ( )

ceu1kg : CEU (N=60) genotypes from 1000 g... (see metadata) ( )

ceu1kgv : expression + genotype on 79 unre... (see metadata) ( )

ceuhm3 : ceuhm3: genotype (HapMap phase I... (see metadata) ( )

cgdv17 : Complete Genomics Diversity Pane... (see metadata) ( )

cghMCR : Find chromosome regions showing ... (see metadata) ( )

charm : Analysis of DNA methylation data... (see metadata) ( )

charmData : An example dataset for use with the charm package ( )

cheung2010 : resources for genetics of gene e... (see metadata) ( )

chicken_db : Affymetrix chicken annotation data (chip chicken) ( )

chicken_db0 : Base Level Annotation databases for chicken ( )

chickencdf : chickencdf ( )

chickenprobe : Probe sequence data for microarr... (see metadata) ( )

chimp_db0 : Base Level Annotation databases for chimp ( )

chipenrich : Gene set enrichment for ChIP-seq peak data ( )

chipenrich_data : Gene set enrichment analysis for ChIP-seq data ( )

chipseq : chipseq: A package for analyzing chipseq data ( )

chopsticks : The snp.matrix and X.snp.matrix classes ( )

chroGPS : chroGPS: visualizing the epigenome ( )

cisPath : Visualization and management of ... (see metadata) ( )

citruscdf : citruscdf ( )

citrusprobe : Probe sequence data for microarrays of type citrus ( )

cleanUpdTSeq : This package classifies putative... (see metadata) ( )

cleaver : Cleavage of polypeptide sequences ( )

clippda : A package for the clinical prote... (see metadata) ( )

clonotypeR : High throughput analysis of T ce... (see metadata) ( )

clst : Classification by local similarity threshold ( )

clstutils : Tools for performing taxonomic assignment. ( )

clusterProfiler : statistical analysis and visuliz... (see metadata) ( )

clusterStab : Compute cluster stability scores... (see metadata) ( )

cn_farms : cn.farms - factor analysis for c... (see metadata) ( )

cn_mops : cn.mops - Mixture of Poissons fo... (see metadata) ( )

cnvGSA : Gene Set Analysis of (Rare) Copy Number Variants ( )

cnvGSAdata : Data used in the vignette of the cnvGSA package ( )

coGPS : cancer outlier Gene Profile Sets ( )

coRNAi : Analysis of co-knock-down RNAi data ( )

cobindR : Finding Co-occuring motifs of tr... (see metadata) ( )

codelink : Manipulation of Codelink Bioarrays data. ( )

colonCA : exprSet for Alon et al. (1999) colon cancer data ( )

convert : Convert Microarray Data Objects ( )

copa : Functions to perform cancer outl... (see metadata) ( )

copynumber : Segmentation of single- and mult... (see metadata) ( )

cottoncdf : cottoncdf ( )

cottonprobe : Probe sequence data for microarrays of type cotton ( )

cqn : Conditional quantile normalization ( )

crlmm : Genotype Calling (CRLMM) and Cop... (see metadata) ( )

ctc : Cluster and Tree Conversion. ( )

cummeRbund : Analysis, exploration, manipulat... (see metadata) ( )

curatedBladderData : Bladder Cancer Gene Expression Analysis ( )

curatedOvarianData : Clinically Annotated Data for th... (see metadata) ( )

customProDB : Generate customized protein data... (see metadata) ( )

cycle : Significance of periodic express... (see metadata) ( )

cyp450cdf : cyp450cdf ( )

daMA : Efficient design and analysis of... (see metadata) ( )

dagLogo : dagLogo ( )

davidTiling : Data and analysis scripts for Da... (see metadata) ( )

ddCt : The ddCt Algorithm for the Analy... (see metadata) ( )

ddgraph : Distinguish direct and indirect ... (see metadata) ( )

deepSNV : Detection of subclonal SNVs in d... (see metadata) ( )

deltaGseg : deltaGseg ( )

dexus : DEXUS - Identifying Differential... (see metadata) ( )

diffGeneAnalysis : Performs differential gene expression Analysis ( )

dks : The double Kolmogorov-Smirnov pa... (see metadata) ( )

domainsignatures : Geneset enrichment based on Inte... (see metadata) ( )

dressCheck : data and software for checking D... (see metadata) ( )

drosgenome1_db : Affymetrix Drosophila Genome Arr... (see metadata) ( )

drosgenome1cdf : drosgenome1cdf ( )

drosgenome1probe : Probe sequence data for microarr... (see metadata) ( )

drosophila2_db : Affymetrix Drosophila Genome 2.0... (see metadata) ( )

drosophila2cdf : drosophila2cdf ( )

drosophila2probe : Probe sequence data for microarr... (see metadata) ( )

dsQTL : dsQTL, data excerpt from Degner ... (see metadata) ( )

dyebias : The GASSCO method for correcting... (see metadata) ( )

dyebiasexamples : Example data for the dyebias pac... (see metadata) ( )

easyRNASeq : Count summarization and normaliz... (see metadata) ( )

ecoli2_db : Affymetrix E. coli Genome 2.0 Ar... (see metadata) ( )

ecoli2cdf : ecoli2cdf ( )

ecoli2probe : Probe sequence data for microarrays of type ecoli2 ( )

ecoliK12_db0 : Base Level Annotation databases ... (see metadata) ( )

ecoliLeucine : Experimental data with Affymetrix E. coli chips ( )

ecoliSakai_db0 : Base Level Annotation databases ... (see metadata) ( )

ecoliasv2cdf : ecoliasv2cdf ( )

ecoliasv2probe : Probe sequence data for microarr... (see metadata) ( )

ecolicdf : ecolicdf ( )

ecoliprobe : Probe sequence data for microarrays of type ecoli ( )

ecolitk : Meta-data and tools for E. coli ( )

edgeR : Empirical analysis of digital ge... (see metadata) ( )

eiR : Accelerated similarity searching... (see metadata) ( )

eisa : Expression data analysis via the... (see metadata) ( )

encoDnaseI : data provided by UCSC for Cd4 ra... (see metadata) ( )

epigenomix : Epigenetic and gene expression d... (see metadata) ( )

epivizr : R Interface to epiviz web app ( )

estrogen : 2x2 factorial design exercise fo... (see metadata) ( )

exomeCopy : Copy number variant detection fr... (see metadata) ( )

exomePeak : exomePeak ( )

explorase : GUI for exploratory data analysi... (see metadata) ( )

faahKO : Saghatelian et al. (2004) FAAH knockout LC/MS data ( )

fabia : FABIA: Factor Analysis for Bicluster Acquisition ( )

fabiaData : Data sets for FABIA (Factor Anal... (see metadata) ( )

facsDorit : DKFZ FACS example data ( )

factDesign : Factorial designed microarray experiment analysis ( )

farms : FARMS - Factor Analysis for Robu... (see metadata) ( )

fastseg : fastseg - a fast segmentation algorithm ( )

fdrame : FDR adjustments of Microarray Ex... (see metadata) ( )

ffpe : Quality assessment and control f... (see metadata) ( )

ffpeExampleData : Illumina DASL example microarray data ( )

fibroEset : exprSet for Karaman et al. (2003) fibroblasts data ( )

flagme : Analysis of Metabolomics GC/MS Data ( )

flipflop : Fast lasso-based isoform predict... (see metadata) ( )

flowBeads : flowBeads: Analysis of flow bead data ( )

flowClust : Clustering for Flow Cytometry ( )

flowCore : flowCore: Basic structures for flow cytometry data ( )

flowFP : Fingerprinting for Flow Cytometry ( )

flowFit : Estimate proliferation in cell-t... (see metadata) ( )

flowFitExampleData : Example data for the flowFit package ( )

flowFlowJo : Tools for extracting information... (see metadata) ( )

flowMap : A probabilistic algorithm for ma... (see metadata) ( )

flowMeans : Non-parametric Flow Cytometry Data Gating ( )

flowPeaks : An R package for flow data clustering ( )

flowPhyto : Methods for Continuous Flow Cytometry ( )

flowPlots : flowPlots: analysis plots and da... (see metadata) ( )

flowQ : Quality control for flow cytometry ( )

flowQB : Automated Quadratic Characteriza... (see metadata) ( )

flowTrans : Parameter Optimization for Flow ... (see metadata) ( )

flowUtils : Utilities for flow cytometry ( )

flowViz : Visualization for flow cytometry ( )

flowWorkspaceData : A data package containing two fl... (see metadata) ( )

fly_db0 : Base Level Annotation databases for fly ( )

fmcsR : Mismatch Tolerant Maximum Common... (see metadata) ( )

frma : Frozen RMA and Barcode ( )

frmaExampleData : Frma Example Data ( )

frmaTools : Frozen RMA Tools ( )

gCMAP : Tools for Connectivity Map-like analyses ( )

gCMAPWeb : A web interface for gene-set enrichment analyses ( )

gaga : GaGa hierarchical model for high... (see metadata) ( )

gage : Generally Applicable Gene-set En... (see metadata) ( )

gageData : Auxillary data for gage package ( )

gaggle : Broadcast data between R and Gaggle ( )

gahgu133a_db : Genecards derived annotations fo... (see metadata) ( )

gahgu133acdf : gahgu133acdf ( )

gahgu133aprobe : Probe sequence data for microarr... (see metadata) ( )

gahgu133b_db : Genecards derived annotations fo... (see metadata) ( )

gahgu133bcdf : gahgu133bcdf ( )

gahgu133bprobe : Probe sequence data for microarr... (see metadata) ( )

gahgu133plus2_db : Genecards derived annotations fo... (see metadata) ( )

gahgu133plus2cdf : gahgu133plus2cdf ( )

gahgu133plus2probe : Probe sequence data for microarr... (see metadata) ( )

gahgu95av2_db : Genecards derived annotations fo... (see metadata) ( )

gahgu95av2cdf : gahgu95av2cdf ( )

gahgu95av2probe : Probe sequence data for microarr... (see metadata) ( )

gahgu95b_db : Genecards derived annotations fo... (see metadata) ( )

gahgu95bcdf : gahgu95bcdf ( )

gahgu95bprobe : Probe sequence data for microarr... (see metadata) ( )

gahgu95c_db : Genecards derived annotations fo... (see metadata) ( )

gahgu95ccdf : gahgu95ccdf ( )

gahgu95cprobe : Probe sequence data for microarr... (see metadata) ( )

gahgu95d_db : Genecards derived annotations fo... (see metadata) ( )

gahgu95dcdf : gahgu95dcdf ( )

gahgu95dprobe : Probe sequence data for microarr... (see metadata) ( )

gahgu95e_db : Genecards derived annotations fo... (see metadata) ( )

gahgu95ecdf : gahgu95ecdf ( )

gahgu95eprobe : Probe sequence data for microarr... (see metadata) ( )

gaia : GAIA: An R package for genomic a... (see metadata) ( )

gaschYHS : ExpressionSet for response of ye... (see metadata) ( )

gatingMLData : Data and XML files for Gating-ML Test suite ( )

gcrma : Background Adjustment Using Sequence Information ( )

gcspikelite : Spike-in data for GC/MS data and... (see metadata) ( )

geNetClassifier : classify diseases and build asso... (see metadata) ( )

genArise : Microarray Analysis tool ( )

geneLenDataBase : Lengths of mRNA transcripts for ... (see metadata) ( )

geneRecommender : A gene recommender algorithm to ... (see metadata) ( )

genefilter : genefilter: methods for filterin... (see metadata) ( )

genefu : Relevant Functions for Gene Expr... (see metadata) ( )

geneplotter : Graphics related functions for Bioconductor ( )

genoCN : genotyping and copy number study tools ( )

genomeIntervals : Operations on genomic intervals ( )

genomes : Genome sequencing project metadata ( )

genomewidesnp5Crlmm : Metadata for fast genotyping wit... (see metadata) ( )

genomewidesnp6Crlmm : Metadata for fast genotyping wit... (see metadata) ( )

genoset : Provides classes similar to Expr... (see metadata) ( )

ggbio : Visualization tools for genomic data. ( )

girafe : Genome Intervals and Read Alignm... (see metadata) ( )

globaltest : Testing groups of covariates/fea... (see metadata) ( )

gmapR : Provides convenience methods to ... (see metadata) ( )

goProfiles : goProfiles: an R package for the... (see metadata) ( )

goTools : Functions for Gene Ontology database ( )

golubEsets : exprSets for golub leukemia data ( )

goseq : Gene Ontology analyser for RNA-s... (see metadata) ( )

gp53cdf : gp53cdf ( )

gpls : Classification using generalized... (see metadata) ( )

gprege : Gaussian Process Ranking and Est... (see metadata) ( )

graph : graph: A package to handle graph data structures ( )

graphite : GRAPH Interaction from pathway T... (see metadata) ( )

gwascat : representing and modeling data i... (see metadata) ( )

h10kcod_db : Codelink UniSet Human I Bioarray... (see metadata) ( )

h20kcod_db : Codelink UniSet Human 20k I Bioa... (see metadata) ( )

h5vc : Managing alignment tallies using a hdf5 backend ( )

h5vcData : Example data for the h5vc package ( )

hapFabia : hapFabia: Identification of very... (see metadata) ( )

hapmap100khind : Sample data - Hapmap 100K HIND Affymetrix ( )

hapmap100kxba : Sample data - Hapmap 100K XBA Affymetrix ( )

hapmap370k : Example Illumina 370k HapMap Data ( )

hapmap500knsp : Sample data - Hapmap 500K NSP Affymetrix ( )

hapmap500ksty : Sample data - Hapmap 500K STY Affymetrix ( )

hapmapsnp5 : Sample data - Hapmap SNP 5.0 Affymetrix ( )

hapmapsnp6 : Sample data - Hapmap SNP 6.0 Affymetrix ( )

harbChIP : Experimental Data Package: harbChIP ( )

hcg110_db : Affymetrix Human Cancer G110 Arr... (see metadata) ( )

hcg110cdf : hcg110cdf ( )

hcg110probe : Probe sequence data for microarrays of type hcg110 ( )

hgfocus_db : Affymetrix Human Genome Focus Ar... (see metadata) ( )

hgfocuscdf : hgfocuscdf ( )

hgfocusprobe : Probe sequence data for microarr... (see metadata) ( )

hgu133a2_db : Affymetrix Human Genome U133A 2.... (see metadata) ( )

hgu133a2cdf : hgu133a2cdf ( )

hgu133a2frmavecs : Vectors used by frma for microar... (see metadata) ( )

hgu133a2probe : Probe sequence data for microarr... (see metadata) ( )

hgu133a_db : Affymetrix Human Genome U133 Set... (see metadata) ( )

hgu133abarcodevecs : hgu133a data for barcode ( )

hgu133acdf : hgu133acdf ( )

hgu133afrmavecs : Vectors used by frma for microar... (see metadata) ( )

hgu133aprobe : Probe sequence data for microarr... (see metadata) ( )

hgu133atagcdf : hgu133atagcdf ( )

hgu133atagprobe : Probe sequence data for microarr... (see metadata) ( )

hgu133b_db : Affymetrix Human Genome U133 Set... (see metadata) ( )

hgu133bcdf : hgu133bcdf ( )

hgu133bprobe : Probe sequence data for microarr... (see metadata) ( )

hgu133plus2_db : Affymetrix Human Genome U133 Plu... (see metadata) ( )

hgu133plus2barcodevecs : hgu133plus2 data for barcode ( )

hgu133plus2cdf : hgu133plus2cdf ( )

hgu133plus2frmavecs : Vectors used by frma for microar... (see metadata) ( )

hgu133plus2probe : Probe sequence data for microarr... (see metadata) ( )

hgu219_db : Affymetrix Human Genome 219 Plat... (see metadata) ( )

hgu219cdf : hgu219cdf ( )

hgu219probe : Probe sequence data for microarrays of type hgu219 ( )

hgu2beta7 : A data package containing annota... (see metadata) ( )

hgu95a_db : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95acdf : hgu95acdf ( )

hgu95aprobe : Probe sequence data for microarrays of type hgu95a ( )

hgu95av2 : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95av2_db : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95av2cdf : hgu95av2cdf ( )

hgu95av2probe : Probe sequence data for microarr... (see metadata) ( )

hgu95b_db : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95bcdf : hgu95bcdf ( )

hgu95bprobe : Probe sequence data for microarrays of type hgu95b ( )

hgu95c_db : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95ccdf : hgu95ccdf ( )

hgu95cprobe : Probe sequence data for microarrays of type hgu95c ( )

hgu95d_db : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95dcdf : hgu95dcdf ( )

hgu95dprobe : Probe sequence data for microarrays of type hgu95d ( )

hgu95e_db : Affymetrix Human Genome U95 Set ... (see metadata) ( )

hgu95ecdf : hgu95ecdf ( )

hgu95eprobe : Probe sequence data for microarrays of type hgu95e ( )

hguDKFZ31_db : Unknown annotation data (chip hguDKFZ31) ( )

hguatlas13k_db : Clontech BD Atlas Long Oligos Hu... (see metadata) ( )

hgubeta7_db : Unknown annotation data (chip hgubeta7) ( )

hgug4100a_db : Agilent Human 1 cDNA Microarray ... (see metadata) ( )

hgug4101a_db : Agilent Human 2 cDNA Microarry K... (see metadata) ( )

hgug4110b_db : Agilent Human 1A (V2) annotation... (see metadata) ( )

hgug4111a_db : Agilent Human 1B annotation data (chip hgug4111a) ( )

hgug4112a_db : Agilent Human Genome, Whole anno... (see metadata) ( )

hgug4845a_db : agilent AMADID 026652 annotation... (see metadata) ( )

hguqiagenv3_db : Qiagen Qiagen V3.0 oligo set ann... (see metadata) ( )

hi16cod_db : Codelink Human Inflammation 16 B... (see metadata) ( )

hivprtplus2cdf : hivprtplus2cdf ( )

hmyriB36 : YRI hapmap + expression (GENEVAR... (see metadata) ( )

hom_At_inp_db : Homology information for Arabido... (see metadata) ( )

hom_Ce_inp_db : Homology information for Caenorh... (see metadata) ( )

hom_Dm_inp_db : Homology information for Drosoph... (see metadata) ( )

hom_Dr_inp_db : Homology information for Danio r... (see metadata) ( )

hom_Hs_inp_db : Homology information for Homo Sa... (see metadata) ( )

hom_Mm_inp_db : Homology information for Mus mus... (see metadata) ( )

hom_Rn_inp_db : Homology information for Rattus ... (see metadata) ( )

hom_Sc_inp_db : Homology information for Sacchar... (see metadata) ( )

hopach : Hierarchical Ordered Partitionin... (see metadata) ( )

hpar : Human Protein Atlas in R ( )

hs25kresogen_db : RNG_MRC Human Pangenomic 25k Set... (see metadata) ( )

htSeqTools : Quality Control, Visualization a... (see metadata) ( )

hthgu133a_db : Affymetrix HT Human Genome U133 ... (see metadata) ( )

hthgu133acdf : hthgu133acdf ( )

hthgu133afrmavecs : Vectors used by frma for microar... (see metadata) ( )

hthgu133aprobe : Probe sequence data for microarr... (see metadata) ( )

hthgu133b_db : Affymetrix HT Human Genome U133 ... (see metadata) ( )

hthgu133bcdf : hthgu133bcdf ( )

hthgu133bprobe : Probe sequence data for microarr... (see metadata) ( )

hthgu133pluspmcdf : hthgu133pluspmcdf ( )

hthgu133pluspmprobe : Probe sequence data for microarr... (see metadata) ( )

htmg430acdf : htmg430acdf ( )

htmg430aprobe : Probe sequence data for microarr... (see metadata) ( )

htmg430bcdf : htmg430bcdf ( )

htmg430bprobe : Probe sequence data for microarr... (see metadata) ( )

htmg430pmcdf : htmg430pmcdf ( )

htmg430pmprobe : Probe sequence data for microarr... (see metadata) ( )

htrat230pmcdf : htrat230pmcdf ( )

htrat230pmprobe : Probe sequence data for microarr... (see metadata) ( )

htratfocuscdf : htratfocuscdf ( )

htratfocusprobe : Probe sequence data for microarr... (see metadata) ( )

hu35ksuba_db : Affymetrix Human Genome HU35K Se... (see metadata) ( )

hu35ksubacdf : hu35ksubacdf ( )

hu35ksubaprobe : Probe sequence data for microarr... (see metadata) ( )

hu35ksubb_db : Affymetrix Human Genome HU35K Se... (see metadata) ( )

hu35ksubbcdf : hu35ksubbcdf ( )

hu35ksubbprobe : Probe sequence data for microarr... (see metadata) ( )

hu35ksubc_db : Affymetrix Human Genome HU35K Se... (see metadata) ( )

hu35ksubccdf : hu35ksubccdf ( )

hu35ksubcprobe : Probe sequence data for microarr... (see metadata) ( )

hu35ksubd_db : Affymetrix Human Genome HU35K Se... (see metadata) ( )

hu35ksubdcdf : hu35ksubdcdf ( )

hu35ksubdprobe : Probe sequence data for microarr... (see metadata) ( )

hu6800_db : Affymetrix HuGeneFL Genome Array... (see metadata) ( )

hu6800cdf : hu6800cdf ( )

hu6800probe : Probe sequence data for microarrays of type hu6800 ( )

hu6800subacdf : hu6800subacdf ( )

hu6800subbcdf : hu6800subbcdf ( )

hu6800subccdf : hu6800subccdf ( )

hu6800subdcdf : hu6800subdcdf ( )

huex_1_0_st_v2frmavecs : Vectors used by frma for microar... (see metadata) ( )

hugene10stprobeset_db : Affymetrix Human Gene 1.0-ST Pro... (see metadata) ( )

hugene10sttranscriptcluster_db : Affymetrix Human Gene 1.0-ST Arr... (see metadata) ( )

hugene10stv1cdf : hugene10stv1cdf ( )

hugene10stv1probe : Probe sequence data for microarr... (see metadata) ( )

hugene11stprobeset_db : Affymetrix Human Gene 1.1-ST Arr... (see metadata) ( )

hugene11sttranscriptcluster_db : Affymetrix Human Gene 1.1-ST Arr... (see metadata) ( )

hugene20stprobeset_db : Affymetrix hugene20 annotation d... (see metadata) ( )

hugene20sttranscriptcluster_db : Affymetrix hugene20 annotation d... (see metadata) ( )

hugene21stprobeset_db : Affymetrix hugene21 annotation d... (see metadata) ( )

hugene21sttranscriptcluster_db : Affymetrix hugene21 annotation d... (see metadata) ( )

hugene_1_0_st_v1frmavecs : Vectors used by frma for microar... (see metadata) ( )

human1mduov3bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human1mv1cCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human370quadv3cCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human370v1cCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human550v3bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human610quadv1bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human650v3aCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

human660quadv1aCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

humanCHRLOC : A data package containing annota... (see metadata) ( )

humanStemCell : Human Stem Cells time course experiment ( )

human_db0 : Base Level Annotation databases for human ( )

humancytosnp12v2p1hCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

humanomni1quadv1bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

humanomni25quadv1bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

humanomni5quadv1bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

humanomniexpress12v1bCrlmm : Metadata for fast genotyping wit... (see metadata) ( )

hwgcod_db : Codelink Human Whole Genome Bioa... (see metadata) ( )

hypergraph : A package providing hypergraph data structures ( )

iASeq : iASeq: integrating multiple sequ... (see metadata) ( )

iBBiG : Iterative Binary Biclustering of Genesets ( )

iChip : Bayesian Modeling of ChIP-chip D... (see metadata) ( )

iPAC : Identification of Protein Amino acid Clustering ( )

iSeq : Bayesian Hierarchical Modeling o... (see metadata) ( )

ibh : Interaction Based Homogeneity fo... (see metadata) ( )

idiogram : idiogram ( )

illuminaHumanWGDASLv3_db : Illumina HumanHT12WGDASLv3 annot... (see metadata) ( )

illuminaHumanWGDASLv4_db : Illumina HumanWGDASLv4 annotatio... (see metadata) ( )

illuminaHumanv1_db : Illumina HumanWG6v1 annotation d... (see metadata) ( )

illuminaHumanv2BeadID_db : Illumina HumanWGv2 annotation da... (see metadata) ( )

illuminaHumanv2_db : Illumina HumanWG6v2 annotation d... (see metadata) ( )

illuminaHumanv3_db : Illumina HumanHT12v3 annotation ... (see metadata) ( )

illuminaHumanv4_db : Illumina HumanHT12v4 annotation ... (see metadata) ( )

illuminaMousev1_db : Illumina MouseWG6v1 annotation d... (see metadata) ( )

illuminaMousev1p1_db : Illumina MouseWG6v1p1 annotation... (see metadata) ( )

illuminaMousev2_db : Illumina MouseWG6v2 annotation d... (see metadata) ( )

illuminaRatv1_db : Illumina Ratv1 annotation data (... (see metadata) ( )

illuminaio : Parsing Illumina microarray output files ( )

imageHTS : Analysis of high-throughput micr... (see metadata) ( )

impute : impute: Imputation for microarray data ( )

inSilicoDb : Access to the InSilico Database ( )

inSilicoMerging : Collection of Merging Techniques... (see metadata) ( )

ind1KG : Data from 1000 Genomes, NA19240 ... (see metadata) ( )

indac_db : INDAC FlyChip_long_oligonucleoti... (see metadata) ( )

intansv : Integrative analysis of structural variations ( )

interactiveDisplay : Package for enabling powerful sh... (see metadata) ( )

inveRsion : Inversions in genotype data ( )

iontree : Data management and analysis of ... (see metadata) ( )

iontreeData : Data provided to show the usage ... (see metadata) ( )

isobar : Analysis and quantitation of iso... (see metadata) ( )

iterativeBMA : The Iterative Bayesian Model Ave... (see metadata) ( )

iterativeBMAsurv : The Iterative Bayesian Model Ave... (see metadata) ( )

jmosaics : Joint analysis of multiple ChIP-Seq data sets ( )

joda : JODA algorithm for quantifying g... (see metadata) ( )

keggorthology : graph support for KO, KEGG Orthology ( )

kidpack : DKFZ kidney package ( )

lapmix : Laplace Mixture Model in Microarray Experiments ( )

leeBamViews : leeBamViews -- multiple yeast RN... (see metadata) ( )

les : Identifying Differential Effects... (see metadata) ( )

leukemiasEset : Leukemias microarray gene expres... (see metadata) ( )

limma : Linear Models for Microarray Data ( )

limmaGUI : GUI for limma package ( )

lmdme : Linear Model decomposition for D... (see metadata) ( )

logicFS : Identification of SNP Interactions ( )

logitT : logit-t Package ( )

lol : Lots Of Lasso ( )

lumi : BeadArray Specific Methods for I... (see metadata) ( )

lumiBarnes : Barnes Benchmark Illumina Tissues Titration Data ( )

lumiHumanAll_db : Illumina Human Illumina expressi... (see metadata) ( )

lumiHumanIDMapping : Illumina Identifier mapping for Human ( )

lumiMouseAll_db : Illumina Mouse Illumina expressi... (see metadata) ( )

lumiMouseIDMapping : Illumina Identifier mapping for Mouse ( )

lumiRatAll_db : Illumina Rat Illumina expression... (see metadata) ( )

lumiRatIDMapping : Illumina Identifier mapping for Rat ( )

lungExpression : ExpressionSets for Parmigiani et... (see metadata) ( )

m10kcod_db : Codelink UniSet Mouse I Bioarray... (see metadata) ( )

m20kcod_db : Codelink UniSet Mouse 20k I Bioa... (see metadata) ( )

mBPCR : Bayesian Piecewise Constant Regr... (see metadata) ( )

maCorrPlot : Visualize artificial correlation... (see metadata) ( )

maDB : Microarray database and utility ... (see metadata) ( )

maPredictDSC : Phenotype prediction using micro... (see metadata) ( )

maSigPro : Significant Gene Expression Prof... (see metadata) ( )

maanova : Tools for analyzing Micro Array experiments ( )

macat : MicroArray Chromosome Analysis Tool ( )

made4 : Multivariate analysis of microar... (see metadata) ( )

maigesPack : Functions to handle cDNA microar... (see metadata) ( )

maizecdf : maizecdf ( )

maizeprobe : Probe sequence data for microarrays of type maize ( )

makecdfenv : CDF Environment Maker ( )

malaria_db0 : Base Level Annotation databases for malaria ( )

mammaPrintData : RGLists from the Glas and Buyse ... (see metadata) ( )

manta : Microbial Assemblage Normalized ... (see metadata) ( )

maqcExpression4plex : Sample Expression Data - MAQC / HG18 - NimbleGen ( )

marray : Exploratory analysis for two-col... (see metadata) ( )

maskBAD : Masking probes with binding affinity differences ( )

matchBox : Utilities to compute, compare, a... (see metadata) ( )

mcaGUI : Microbial Community Analysis GUI ( )

mdqc : Mahalanobis Distance Quality Con... (see metadata) ( )

medicagocdf : medicagocdf ( )

medicagoprobe : Probe sequence data for microarr... (see metadata) ( )

metaArray : Integration of Microarray Data for Meta-analysis ( )

metaSeq : Meta-analysis of RNA-Seq count d... (see metadata) ( )

metagenomeSeq : Statistical analysis for sparse ... (see metadata) ( )

metahdep : Hierarchical Dependence in Meta-Analysis ( )

methVisual : Methods for visualization and st... (see metadata) ( )

methyAnalysis : DNA methylation data analysis and visualization ( )

methylMnM : detect different methylation level (DMR) ( )

methylumi : Handle Illumina methylation data ( )

mgsa : Model-based gene set analysis ( )

mgu74a_db : Affymetrix Murine Genome U74v2 a... (see metadata) ( )

mgu74acdf : mgu74acdf ( )

mgu74aprobe : Probe sequence data for microarrays of type mgu74a ( )

mgu74av2_db : Affymetrix Murine Genome U74v2 a... (see metadata) ( )

mgu74av2cdf : mgu74av2cdf ( )

mgu74av2probe : Probe sequence data for microarr... (see metadata) ( )

mgu74b_db : Affymetrix Murine Genome U74v2 a... (see metadata) ( )

mgu74bcdf : mgu74bcdf ( )

mgu74bprobe : Probe sequence data for microarrays of type mgu74b ( )

mgu74bv2_db : Affymetrix Murine Genome U74v2 a... (see metadata) ( )

mgu74bv2cdf : mgu74bv2cdf ( )

mgu74bv2probe : Probe sequence data for microarr... (see metadata) ( )

mgu74c_db : Affymetrix Murine Genome U74v2 a... (see metadata) ( )

mgu74ccdf : mgu74ccdf ( )

mgu74cprobe : Probe sequence data for microarrays of type mgu74c ( )

mgu74cv2_db : Affymetrix Murine Genome U74v2 a... (see metadata) ( )

mgu74cv2cdf : mgu74cv2cdf ( )

mgu74cv2probe : Probe sequence data for microarr... (see metadata) ( )

mguatlas5k_db : Clontech BD Atlas Long Oligos Mo... (see metadata) ( )

mgug4104a_db : Agilent annotation data (chip mgug4104a) ( )

mgug4120a_db : Agilent annotation data (chip mgug4120a) ( )

mgug4121a_db : Agilent Mouse annotation data (chip mgug4121a) ( )

mgug4122a_db : Agilent Mouse Genome, Whole anno... (see metadata) ( )

mi16cod_db : Codelink Mouse Inflammation 16 B... (see metadata) ( )

miRNATarget : gene target tabale of miRNA for ... (see metadata) ( )

miRNApath : miRNApath: Pathway Enrichment fo... (see metadata) ( )

microRNA : Data and functions for dealing with microRNAs ( )

minet : Mutual Information NETworks ( )

minfi : Analyze Illuminas 450k methylation arrays ( )

minfiData : Example data for the Illumina Me... (see metadata) ( )

mirbase_db : miRBase: the microRNA database ( )

mirna102xgaincdf : mirna102xgaincdf ( )

mirna10cdf : mirna10cdf ( )

mirna10probe : Probe sequence data for microarr... (see metadata) ( )

mirna20cdf : mirna20cdf ( )

mm24kresogen_db : RNG_MRC Mouse Pangenomic 24k Set... (see metadata) ( )

moe430a_db : Affymetrix Mouse Expression Set ... (see metadata) ( )

moe430acdf : moe430acdf ( )

moe430aprobe : Probe sequence data for microarr... (see metadata) ( )

moe430b_db : Affymetrix Mouse Expression Set ... (see metadata) ( )

moe430bcdf : moe430bcdf ( )

moe430bprobe : Probe sequence data for microarr... (see metadata) ( )

mogene10stprobeset_db : Affymetrix Mouse Gene 1.0-ST Arr... (see metadata) ( )

mogene10sttranscriptcluster_db : Affymetrix Mouse Gene 1.0-ST Arr... (see metadata) ( )

mogene10stv1cdf : mogene10stv1cdf ( )

mogene10stv1probe : Probe sequence data for microarr... (see metadata) ( )

mogene11stprobeset_db : Affymetrix Mouse Gene 1.1-ST Arr... (see metadata) ( )

mogene11sttranscriptcluster_db : Affymetrix Mouse Gene 1.1-ST Arr... (see metadata) ( )

mogene20stprobeset_db : Affymetrix mogene20 annotation d... (see metadata) ( )

mogene20sttranscriptcluster_db : Affymetrix mogene20 annotation d... (see metadata) ( )

mogene21stprobeset_db : Affymetrix mogene21 annotation d... (see metadata) ( )

mogene21sttranscriptcluster_db : Affymetrix mogene21 annotation d... (see metadata) ( )

mogene_1_0_st_v1frmavecs : Vectors used by frma for microar... (see metadata) ( )

mosaics : MOSAiCS (MOdel-based one and two... (see metadata) ( )

mosaicsExample : Example data for the mosaics pac... (see metadata) ( )

motifStack : Plot stacked logos for single or... (see metadata) ( )

mouse4302_db : Affymetrix Mouse Genome 430 2.0 ... (see metadata) ( )

mouse4302barcodevecs : mouse4302 data for barcode ( )

mouse4302cdf : mouse4302cdf ( )

mouse4302frmavecs : Vectors used by frma for microar... (see metadata) ( )

mouse4302probe : Probe sequence data for microarr... (see metadata) ( )

mouse430a2_db : Affymetrix Mouse Genome 430A 2.0... (see metadata) ( )

mouse430a2cdf : mouse430a2cdf ( )

mouse430a2frmavecs : Vectors used by frma for microar... (see metadata) ( )

mouse430a2probe : Probe sequence data for microarr... (see metadata) ( )

mouseCHRLOC : A data package containing annota... (see metadata) ( )

mouse_db0 : Base Level Annotation databases for mouse ( )

mpedbarray_db : FHCRC Nelson Lab mpedbarray Anno... (see metadata) ( )

msdata : Various Mass Spectrometry raw data example files ( )

msmsEDA : Exploratory Data Analysis of LC-... (see metadata) ( )

msmsTests : LC-MS/MS Differential Expression Tests ( )

mu11ksuba_db : Affymetrix Murine 11K Set annota... (see metadata) ( )

mu11ksubacdf : mu11ksubacdf ( )

mu11ksubaprobe : Probe sequence data for microarr... (see metadata) ( )

mu11ksubb_db : Affymetrix Murine 11K Set annota... (see metadata) ( )

mu11ksubbcdf : mu11ksubbcdf ( )

mu11ksubbprobe : Probe sequence data for microarr... (see metadata) ( )

mu19ksuba_db : Affymetrix Murine Genome 19k Set... (see metadata) ( )

mu19ksubacdf : mu19ksubacdf ( )

mu19ksubb_db : Affymetrix Murine Genome 19k Set... (see metadata) ( )

mu19ksubbcdf : mu19ksubbcdf ( )

mu19ksubc_db : Affymetrix Murine Genome 19k Set... (see metadata) ( )

mu19ksubccdf : mu19ksubccdf ( )

mu6500subacdf : mu6500subacdf ( )

mu6500subbcdf : mu6500subbcdf ( )

mu6500subccdf : mu6500subccdf ( )

mu6500subdcdf : mu6500subdcdf ( )

multiscan : R package for combining multiple scans ( )

multtest : Resampling-based multiple hypothesis testing ( )

mvoutData : affy and illumina raw data for a... (see metadata) ( )

mwgcod_db : Codelink Mouse Whole Genome Bioa... (see metadata) ( )

mzID : An mzIdentML parser for R ( )

mzR : parser for netCDF, mzXML, mzData... (see metadata) ( )

ncdfFlow : ncdfFlow: A package that provide... (see metadata) ( )

neaGUI : An R package to perform the netw... (see metadata) ( )

networkBMA : Regression-based network inferen... (see metadata) ( )

nnNorm : Spatial and intensity based norm... (see metadata) ( )

nucleR : Nucleosome positioning package for R ( )

nudge : Normal Uniform Differential Gene... (see metadata) ( )

nugohs1a520180_db : Affymetrix nugohs1a520180 annota... (see metadata) ( )

nugohs1a520180cdf : nugohs1a520180cdf ( )

nugohs1a520180probe : Probe sequence data for microarr... (see metadata) ( )

nugomm1a520177_db : Affymetrix nugomm1a520177 annota... (see metadata) ( )

nugomm1a520177cdf : nugomm1a520177cdf ( )

nugomm1a520177probe : Probe sequence data for microarr... (see metadata) ( )

occugene : Functions for Multinomial Occupancy Distribution ( )

oligo : Preprocessing tools for oligonucleotide arrays. ( )

oligoClasses : Classes for high-throughput arra... (see metadata) ( )

oligoData : Dataset samples for the oligo package ( )

omicade4 : Multiple co-inertia analysis of omics datasets ( )

ontoCAT : Ontology traversal and search ( )

org_Ag_eg_db : Genome wide annotation for Anopheles ( )

org_At_tair_db : Genome wide annotation for Arabidopsis ( )

org_Bt_eg_db : Genome wide annotation for Bovine ( )

org_Ce_eg_db : Genome wide annotation for Worm ( )

org_Cf_eg_db : Genome wide annotation for Canine ( )

org_Dm_eg_db : Genome wide annotation for Fly ( )

org_Dr_eg_db : Genome wide annotation for Zebrafish ( )

org_EcK12_eg_db : Genome wide annotation for E coli strain K12 ( )

org_EcSakai_eg_db : Genome wide annotation for E coli strain Sakai ( )

org_Gg_eg_db : Genome wide annotation for Chicken ( )

org_Hs_eg_db : Genome wide annotation for Human ( )

org_Hs_ipi_db : A data package containing annota... (see metadata) ( )

org_Mm_eg_db : Genome wide annotation for Mouse ( )

org_Mmu_eg_db : Genome wide annotation for Rhesus ( )

org_Pf_plasmo_db : Genome wide annotation for Malaria ( )

org_Pt_eg_db : Genome wide annotation for Chimp ( )

org_Rn_eg_db : Genome wide annotation for Rat ( )

org_Sc_sgd_db : Genome wide annotation for Yeast ( )

org_Sco_eg_db : Genome wide annotation for Streptomyces coelicolor ( )

org_Ss_eg_db : Genome wide annotation for Pig ( )

org_Tgondii_eg_db : Genome wide annotation for Toxoplasma gondii ( )

org_Xl_eg_db : Genome wide annotation for Xenopus ( )

pRoloc : A unifying bioinformatics framew... (see metadata) ( )

pRolocdata : Data accompanying the pRoloc package ( )

paeg1acdf : paeg1acdf ( )

paeg1aprobe : Probe sequence data for microarrays of type paeg1a ( )

panp : Presence-Absence Calls from Nega... (see metadata) ( )

parathyroid : RNA-Seq data of primary cultures... (see metadata) ( )

parathyroidSE : SummarizedExperiment for RNA-Seq... (see metadata) ( )

parody : Parametric And Resistant Outlier DYtection ( )

pasilla : Data package with per-exon and p... (see metadata) ( )

pasillaBamSubset : Subset of BAM files from Pasilla experiment ( )

pathifier : Quantify deregulation of pathways in cancer ( )

pcaGoPromoter : pcaGoPromoter is used to analyze... (see metadata) ( )

pcaGoPromoter_Hs_hg19 : pcaGoPromoter.Hs.hg19 is a data ... (see metadata) ( )

pcaGoPromoter_Mm_mm9 : pcaGoPromoter.Mm.mm9 is a data p... (see metadata) ( )

pcaGoPromoter_Rn_rn4 : pcaGoPromoter.Rn.rn4 is a data p... (see metadata) ( )

pcaMethods : A collection of PCA methods. ( )

pcot2 : Principal Coordinates and Hotell... (see metadata) ( )

pdInfoBuilder : Platform Design Information Package Builder ( )

pd_081229_hg18_promoter_medip_hx1 : Platform Design Info for NimbleG... (see metadata) ( )

pd_2006_07_18_hg18_refseq_promoter : Platform Design Info for NimbleG... (see metadata) ( )

pd_2006_07_18_mm8_refseq_promoter : Platform Design Info for NimbleG... (see metadata) ( )

pd_2006_10_31_rn34_refseq_promoter : Platform Design Info for NimbleG... (see metadata) ( )

pd_ag : Platform Design Info for The Manufacturers Name AG ( )

pd_aragene_1_0_st : Platform Design Info for Affymetrix AraGene-1_0-st ( )

pd_aragene_1_1_st : Platform Design Info for Affymetrix AraGene-1_1-st ( )

pd_atdschip_tiling : Platform Design Info for Affymet... (see metadata) ( )

pd_ath1_121501 : Platform Design Info for The Man... (see metadata) ( )

pd_barley1 : Platform Design Info for The Man... (see metadata) ( )

pd_bovgene_1_0_st : Platform Design Info for Affymetrix BovGene-1_0-st ( )

pd_bovgene_1_1_st : Platform Design Info for Affymetrix BovGene-1_1-st ( )

pd_bovine : Platform Design Info for The Man... (see metadata) ( )

pd_bsubtilis : Platform Design Info for The Man... (see metadata) ( )

pd_cangene_1_0_st : Platform Design Info for Affymetrix CanGene-1_0-st ( )

pd_cangene_1_1_st : Platform Design Info for Affymetrix CanGene-1_1-st ( )

pd_canine : Platform Design Info for The Man... (see metadata) ( )

pd_canine_2 : Platform Design Info for The Man... (see metadata) ( )

pd_celegans : Platform Design Info for The Man... (see metadata) ( )

pd_charm_hg18_example : Platform Design Info for NimbleG... (see metadata) ( )

pd_chicken : Platform Design Info for The Man... (see metadata) ( )

pd_citrus : Platform Design Info for The Man... (see metadata) ( )

pd_cotton : Platform Design Info for The Man... (see metadata) ( )

pd_cyngene_1_0_st : Platform Design Info for Affymetrix CynGene-1_0-st ( )

pd_cyngene_1_1_st : Platform Design Info for Affymetrix CynGene-1_1-st ( )

pd_cyrgene_1_0_st : Platform Design Info for Affymetrix CyRGene-1_0-st ( )

pd_cyrgene_1_1_st : Platform Design Info for Affymetrix CyRGene-1_1-st ( )

pd_cytogenetics_array : Platform Design Info for Affymet... (see metadata) ( )

pd_drosgenome1 : Platform Design Info for The Man... (see metadata) ( )

pd_drosophila_2 : Platform Design Info for The Man... (see metadata) ( )

pd_e_coli_2 : Platform Design Info for The Man... (see metadata) ( )

pd_ecoli : Platform Design Info for The Man... (see metadata) ( )

pd_ecoli_asv2 : Platform Design Info for The Man... (see metadata) ( )

pd_equgene_1_0_st : Platform Design Info for Affymetrix EquGene-1_0-st ( )

pd_equgene_1_1_st : Platform Design Info for Affymetrix EquGene-1_1-st ( )

pd_feinberg_hg18_me_hx1 : Platform Design Info for NimbleG... (see metadata) ( )

pd_feinberg_mm8_me_hx1 : Platform Design Info for NimbleG... (see metadata) ( )

pd_felgene_1_0_st : Platform Design Info for Affymetrix FelGene-1_0-st ( )

pd_felgene_1_1_st : Platform Design Info for Affymetrix FelGene-1_1-st ( )

pd_genomewidesnp_5 : Platform Design Info for Affymet... (see metadata) ( )

pd_genomewidesnp_6 : Platform Design Info for Affymet... (see metadata) ( )

pd_hc_g110 : Platform Design Info for The Man... (see metadata) ( )

pd_hg18_60mer_expr : Platform Design Info for NimbleGen hg18_60mer_expr ( )

pd_hg_focus : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u133_plus_2 : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u133a : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u133a_2 : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u133a_tag : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u133b : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u219 : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u95a : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u95av2 : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u95b : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u95c : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u95d : Platform Design Info for The Man... (see metadata) ( )

pd_hg_u95e : Platform Design Info for The Man... (see metadata) ( )

pd_ht_hg_u133_plus_pm : Platform Design Info for The Man... (see metadata) ( )

pd_ht_hg_u133a : Platform Design Info for The Man... (see metadata) ( )

pd_ht_mg_430a : Platform Design Info for The Man... (see metadata) ( )

pd_hu6800 : Platform Design Info for The Man... (see metadata) ( )

pd_huex_1_0_st_v2 : Platform Design Info for Affymetrix HuEx-1_0-st-v2 ( )

pd_hugene_1_0_st_v1 : Platform Design Info for Affymet... (see metadata) ( )

pd_hugene_1_1_st_v1 : Platform Design Info for Affymet... (see metadata) ( )

pd_hugene_2_0_st : Platform Design Info for Affymetrix HuGene-2_0-st ( )

pd_hugene_2_1_st : Platform Design Info for Affymetrix HuGene-2_1-st ( )

pd_maize : Platform Design Info for The Man... (see metadata) ( )

pd_mapping250k_nsp : Platform Design Info for Affymet... (see metadata) ( )

pd_mapping250k_sty : Platform Design Info for Affymet... (see metadata) ( )

pd_mapping50k_hind240 : Platform Design Info for Affymet... (see metadata) ( )

pd_mapping50k_xba240 : Platform Design Info for Affymet... (see metadata) ( )

pd_medicago : Platform Design Info for The Man... (see metadata) ( )

pd_mg_u74a : Platform Design Info for The Man... (see metadata) ( )

pd_mg_u74av2 : Platform Design Info for The Man... (see metadata) ( )

pd_mg_u74b : Platform Design Info for The Man... (see metadata) ( )

pd_mg_u74bv2 : Platform Design Info for The Man... (see metadata) ( )

pd_mg_u74c : Platform Design Info for The Man... (see metadata) ( )

pd_mg_u74cv2 : Platform Design Info for The Man... (see metadata) ( )

pd_mirna_1_0 : Platform Design Info for The Man... (see metadata) ( )

pd_mirna_2_0 : Platform Design Info for Affymetrix miRNA-2_0 ( )

pd_mirna_3_0 : Platform Design Info for Affymetrix miRNA-3_0 ( )

pd_mirna_3_1 : Platform Design Info for Affymetrix miRNA-3_1 ( )

pd_moe430a : Platform Design Info for The Man... (see metadata) ( )

pd_moe430b : Platform Design Info for The Man... (see metadata) ( )

pd_moex_1_0_st_v1 : Platform Design Info for Affymetrix MoEx-1_0-st-v1 ( )

pd_mogene_1_0_st_v1 : Platform Design Info for Affymet... (see metadata) ( )

pd_mogene_1_1_st_v1 : Platform Design Info for Affymet... (see metadata) ( )

pd_mogene_2_0_st : Platform Design Info for Affymetrix MoGene-2_0-st ( )

pd_mogene_2_1_st : Platform Design Info for Affymetrix MoGene-2_1-st ( )

pd_mouse430_2 : Platform Design Info for The Man... (see metadata) ( )

pd_mouse430a_2 : Platform Design Info for The Man... (see metadata) ( )

pd_mu11ksuba : Platform Design Info for The Man... (see metadata) ( )

pd_mu11ksubb : Platform Design Info for The Man... (see metadata) ( )

pd_ovigene_1_0_st : Platform Design Info for Affymetrix OviGene-1_0-st ( )

pd_ovigene_1_1_st : Platform Design Info for Affymetrix OviGene-1_1-st ( )

pd_pae_g1a : Platform Design Info for The Man... (see metadata) ( )

pd_plasmodium_anopheles : Platform Design Info for The Man... (see metadata) ( )

pd_poplar : Platform Design Info for The Man... (see metadata) ( )

pd_porcine : Platform Design Info for The Man... (see metadata) ( )

pd_porgene_1_0_st : Platform Design Info for Affymetrix PorGene-1_0-st ( )

pd_porgene_1_1_st : Platform Design Info for Affymetrix PorGene-1_1-st ( )

pd_rae230a : Platform Design Info for The Man... (see metadata) ( )

pd_rae230b : Platform Design Info for The Man... (see metadata) ( )

pd_raex_1_0_st_v1 : Platform Design Info for Affymetrix RaEx-1_0-st-v1 ( )

pd_ragene_1_0_st_v1 : Platform Design Info for Affymet... (see metadata) ( )

pd_ragene_1_1_st_v1 : Platform Design Info for Affymet... (see metadata) ( )

pd_ragene_2_0_st : Platform Design Info for Affymetrix RaGene-2_0-st ( )

pd_ragene_2_1_st : Platform Design Info for Affymetrix RaGene-2_1-st ( )

pd_rat230_2 : Platform Design Info for The Man... (see metadata) ( )

pd_rcngene_1_1_st : Platform Design Info for Affymetrix RCnGene-1_1-st ( )

pd_rg_u34a : Platform Design Info for The Man... (see metadata) ( )

pd_rg_u34b : Platform Design Info for The Man... (see metadata) ( )

pd_rg_u34c : Platform Design Info for The Man... (see metadata) ( )

pd_rhegene_1_0_st : Platform Design Info for Affymetrix RheGene-1_0-st ( )

pd_rhegene_1_1_st : Platform Design Info for Affymetrix RheGene-1_1-st ( )

pd_rhesus : Platform Design Info for The Man... (see metadata) ( )

pd_rice : Platform Design Info for The Man... (see metadata) ( )

pd_rjpgene_1_1_st : Platform Design Info for Affymetrix RJpGene-1_1-st ( )

pd_rn_u34 : Platform Design Info for The Man... (see metadata) ( )

pd_s_aureus : Platform Design Info for The Man... (see metadata) ( )

pd_soybean : Platform Design Info for The Man... (see metadata) ( )

pd_soygene_1_1_st : Platform Design Info for Affymetrix SoyGene-1_1-st ( )

pd_sugar_cane : Platform Design Info for The Man... (see metadata) ( )

pd_tomato : Platform Design Info for The Man... (see metadata) ( )

pd_u133_x3p : Platform Design Info for The Man... (see metadata) ( )

pd_vitis_vinifera : Platform Design Info for The Man... (see metadata) ( )

pd_wheat : Platform Design Info for The Man... (see metadata) ( )

pd_x_laevis_2 : Platform Design Info for The Man... (see metadata) ( )

pd_x_tropicalis : Platform Design Info for The Man... (see metadata) ( )

pd_xenopus_laevis : Platform Design Info for The Man... (see metadata) ( )

pd_yeast_2 : Platform Design Info for The Man... (see metadata) ( )

pd_yg_s98 : Platform Design Info for The Man... (see metadata) ( )

pd_zebgene_1_0_st : Platform Design Info for Affymetrix ZebGene-1_0-st ( )

pd_zebgene_1_1_st : Platform Design Info for Affymetrix ZebGene-1_1-st ( )

pd_zebrafish : Platform Design Info for The Man... (see metadata) ( )

pdmclass : Classification of Microarray Sam... (see metadata) ( )

pedbarrayv10_db : FHCRC Nelson Lab pedbarrayv10 An... (see metadata) ( )

pedbarrayv9_db : FHCRC Nelson Lab pedbarrayv9 Ann... (see metadata) ( )

pgUtils : Utility functions for PostgreSQL databases ( )

phenoDist : Phenotypic distance measures ( )

phenoTest : Tools to test association betwee... (see metadata) ( )

phyloseq : Handling and analysis of high-th... (see metadata) ( )

piano : Platform for integrative analysis of omics data ( )

pickgene : Adaptive Gene Picking for Microa... (see metadata) ( )

pig_db0 : Base Level Annotation databases for pig ( )

pint : Pairwise INTegration of functional genomics data ( )

pkgDepTools : Package Dependency Tools ( )

plasmodiumanophelescdf : plasmodiumanophelescdf ( )

plasmodiumanophelesprobe : Probe sequence data for microarr... (see metadata) ( )

plateCore : Statistical tools and data struc... (see metadata) ( )

plethy : R framework for exploration and ... (see metadata) ( )

plgem : Detect differential expression i... (see metadata) ( )

plier : Implements the Affymetrix PLIER algorithm ( )

plrs : Piecewise Linear Regression Spli... (see metadata) ( )

plw : Probe level Locally moderated Weighted t-tests. ( )

poplarcdf : poplarcdf ( )

poplarprobe : Probe sequence data for microarrays of type poplar ( )

porcine_db : Affymetrix porcine annotation data (chip porcine) ( )

porcinecdf : porcinecdf ( )

porcineprobe : Probe sequence data for microarr... (see metadata) ( )

ppiData : A package that contains the bait... (see metadata) ( )

prada : Data analysis for cell-based functional assays ( )

prebs : Probe region expression estimati... (see metadata) ( )

prebsdata : Data for prebs package ( )

predictionet : Inference for predictive network... (see metadata) ( )

preprocessCore : A collection of pre-processing functions ( )

primeviewcdf : primeviewcdf ( )

primeviewprobe : Probe sequence data for microarr... (see metadata) ( )

procoil : Prediction of Oligomerization of... (see metadata) ( )

prot2D : Statistical Tools for volume dat... (see metadata) ( )

proteinProfiles : Protein Profiling ( )

puma : Propagating Uncertainty in Microarray Analysis ( )

pumadata : Various data sets for use with the puma package ( )

pvac : PCA-based gene filtering for Affymetrix arrays ( )

pvca : Principal Variance Component Analysis (PVCA) ( )

qcmetrics : A Framework for Quality Control ( )

qpcrNorm : Data-driven normalization strate... (see metadata) ( )

qrqc : Quick Read Quality Control ( )

quantsmooth : Quantile smoothing and genomic v... (see metadata) ( )

qusage : qusage: Quantitative Set Analysi... (see metadata) ( )

qvalue : Q-value estimation for false dis... (see metadata) ( )

r10kcod_db : Codelink UniSet Rat I Bioarray (... (see metadata) ( )

r3Cseq : Analysis of Chromosome Conformat... (see metadata) ( )

rBiopaxParser : Parses BioPax files and represents them in R ( )

rGADEM : de novo motif discovery ( )

rHVDM : Hidden Variable Dynamic Modeling ( )

rMAT : R implementation from MAT progra... (see metadata) ( )

rSFFreader : rSFFreader reads in sff files ge... (see metadata) ( )

rTRM : Identification of transcriptiona... (see metadata) ( )

rTRMui : A shiny user interface for rTRM ( )

rae230a_db : Affymetrix Rat Expression Set 23... (see metadata) ( )

rae230acdf : rae230acdf ( )

rae230aprobe : Probe sequence data for microarr... (see metadata) ( )

rae230b_db : Affymetrix Rat Expression Set 23... (see metadata) ( )

rae230bcdf : rae230bcdf ( )

rae230bprobe : Probe sequence data for microarr... (see metadata) ( )

ragene10stprobeset_db : Affymetrix Rat Gene 1.0-ST Array... (see metadata) ( )

ragene10sttranscriptcluster_db : Affymetrix Rat Gene 1.0-ST Array... (see metadata) ( )

ragene10stv1cdf : ragene10stv1cdf ( )

ragene10stv1probe : Probe sequence data for microarr... (see metadata) ( )

ragene11stprobeset_db : Affymetrix Rat Gene 1.1-ST Array... (see metadata) ( )

ragene11sttranscriptcluster_db : Affymetrix Rat Gene 1.1-ST Array... (see metadata) ( )

ragene20stprobeset_db : Affymetrix ragene20 annotation d... (see metadata) ( )

ragene20sttranscriptcluster_db : Affymetrix ragene20 annotation d... (see metadata) ( )

ragene21stprobeset_db : Affymetrix ragene21 annotation d... (see metadata) ( )

ragene21sttranscriptcluster_db : Affymetrix ragene21 annotation d... (see metadata) ( )

rama : Robust Analysis of MicroArrays ( )

randPack : Randomization routines for Clinical Trials ( )

rat2302_db : Affymetrix Rat Genome 230 2.0 Ar... (see metadata) ( )

rat2302cdf : rat2302cdf ( )

rat2302probe : Probe sequence data for microarr... (see metadata) ( )

ratCHRLOC : A data package containing annota... (see metadata) ( )

rat_db0 : Base Level Annotation databases for rat ( )

rattoxfxcdf : rattoxfxcdf ( )

rattoxfxprobe : Probe sequence data for microarr... (see metadata) ( )

rbsurv : Robust likelihood-based survival... (see metadata) ( )

reactome_db : A set of annotation maps for reactome ( )

reb : Regional Expression Biases ( )

rfPred : Assign rfPred functional predict... (see metadata) ( )

rgu34a_db : Affymetrix Rat Genome U34 Set an... (see metadata) ( )

rgu34acdf : rgu34acdf ( )

rgu34aprobe : Probe sequence data for microarrays of type rgu34a ( )

rgu34b_db : Affymetrix Rat Genome U34 Set an... (see metadata) ( )

rgu34bcdf : rgu34bcdf ( )

rgu34bprobe : Probe sequence data for microarrays of type rgu34b ( )

rgu34c_db : Affymetrix Rat Genome U34 Set an... (see metadata) ( )

rgu34ccdf : rgu34ccdf ( )

rgu34cprobe : Probe sequence data for microarrays of type rgu34c ( )

rguatlas4k_db : Clontech BD Atlas Long Oligos Ra... (see metadata) ( )

rgug4105a_db : Agilent annotation data (chip rgug4105a) ( )

rgug4130a_db : Agilent Rat annotation data (chip rgug4130a) ( )

rgug4131a_db : Agilent Rat Genome, Whole annota... (see metadata) ( )

rhdf5 : HDF5 interface to R ( )

rhesus_db0 : Base Level Annotation databases for rhesus ( )

rhesuscdf : rhesuscdf ( )

rhesusprobe : Probe sequence data for microarrays of type rhesus ( )

rheumaticConditionWOLLBOLD : Normalized gene expression datas... (see metadata) ( )

ri16cod_db : Codelink Rat Inflammation 16 Bio... (see metadata) ( )

ricecdf : ricecdf ( )

riceprobe : Probe sequence data for microarrays of type rice ( )

rnaSeqMap : rnaSeq secondary analyses ( )

rnu34_db : Affymetrix Rat Neurobiology U34 ... (see metadata) ( )

rnu34cdf : rnu34cdf ( )

rnu34probe : Probe sequence data for microarrays of type rnu34 ( )

rols : An R interface to the Ontology Lookup Service ( )

rqubic : Qualitative biclustering algorit... (see metadata) ( )

rtracklayer : R interface to genome browsers a... (see metadata) ( )

rtu34_db : Affymetrix Rat Toxicology U34 Ar... (see metadata) ( )

rtu34cdf : rtu34cdf ( )

rtu34probe : Probe sequence data for microarrays of type rtu34 ( )

rwgcod_db : Codelink Rat Whole Genome Bioarr... (see metadata) ( )

sRAP : Simplified RNA-Seq Analysis Pipeline ( )

sSeq : Shrinkage estimation of dispersi... (see metadata) ( )

safe : Significance Analysis of Function and Expression ( )

sagenhaft : Collection of functions for read... (see metadata) ( )

saureuscdf : saureuscdf ( )

saureusprobe : Probe sequence data for microarr... (see metadata) ( )

segmentSeq : Methods for identifying small RN... (see metadata) ( )

seqCNA_annot : Annotation for the copy number a... (see metadata) ( )

seqLogo : Sequence logos for DNA sequence alignments ( )

seqbias : Estimation of per-position bias ... (see metadata) ( )

seqnames_db : Chromosome Name translations ( )

serumStimulation : serumStimulation is a data packa... (see metadata) ( )

seventyGeneData : ExpressionSets from the vant Vee... (see metadata) ( )

sigPathway : Pathway Analysis ( )

sigaR : statistics for integrative genomics analyses in R ( )

siggenes : Multiple testing using SAM and E... (see metadata) ( )

simpIntLists : The package contains BioGRID int... (see metadata) ( )

simpleaffy : Very simple high level analysis of Affymetrix data ( )

sizepower : Sample Size and Power Calculatio... (see metadata) ( )

snapCGH : Segmentation, normalisation and ... (see metadata) ( )

snm : Supervised Normalization of Microarrays ( )

snpStats : SnpMatrix and XSnpMatrix classes and methods ( )

soybeancdf : soybeancdf ( )

soybeanprobe : Probe sequence data for microarr... (see metadata) ( )

spade : SPADE -- An analysis and visuali... (see metadata) ( )

spikeLI : Affymetrix Spike-in Langmuir Iso... (see metadata) ( )

spkTools : Methods for Spike-in Arrays ( )

spliceR : Classification of alternative sp... (see metadata) ( )

spliceSites : Manages align gap positions from RNA-seq data ( )

splicegear : splicegear ( )

splots : Visualization of high-throughput... (see metadata) ( )

spotSegmentation : Microarray Spot Segmentation and... (see metadata) ( )

sscore : S-Score Algorithm for Affymetrix... (see metadata) ( )

ssize : Estimate Microarray Sample Size ( )

staRank : Stability Ranking ( )

stemHypoxia : Differentiation of Human Embryon... (see metadata) ( )

stepNorm : Stepwise normalization functions... (see metadata) ( )

stepwiseCM : Stepwise Classification of Cance... (see metadata) ( )

stjudem : Microarray Data from Yeoh et al. in MACAT format ( )

sugarcanecdf : sugarcanecdf ( )

sugarcaneprobe : Probe sequence data for microarr... (see metadata) ( )

supraHex : A supra-hexagonal map for analys... (see metadata) ( )

survcomp : Performance Assessment and Compa... (see metadata) ( )

sva : Surrogate Variable Analysis ( )

synapter : Label-free data analysis pipelin... (see metadata) ( )

synapterdata : Data accompanying the synapter package ( )

tRanslatome : Comparison between multiple leve... (see metadata) ( )

targetscan_Hs_eg_db : TargetScan miRNA target predictions for human ( )

targetscan_Mm_eg_db : TargetScan miRNA target predictions for mouse ( )

ternarynet : Ternary Network Estimation ( )

test1cdf : test1cdf ( )

test2cdf : test2cdf ( )

test3cdf : test3cdf ( )

test3probe : Probe sequence data for microarrays of type test3 ( )

tigre : Transcription factor Inference t... (see metadata) ( )

tilingArray : Transcript mapping with high-den... (see metadata) ( )

timecourse : Statistical Analysis for Develop... (see metadata) ( )

tinesath1cdf : tinesath1cdf ( )

tinesath1probe : Probe sequence data for microarr... (see metadata) ( )

tkWidgets : R based tk widgets ( )

tomatocdf : tomatocdf ( )

tomatoprobe : Probe sequence data for microarrays of type tomato ( )

topGO : topGO: Enrichment analysis for Gene Ontology ( )

triform : Triform finds enriched regions (... (see metadata) ( )

trigger : Transcriptional Regulatory Infer... (see metadata) ( )

trio : Testing of SNPs and SNP Interact... (see metadata) ( )

triplex : Search and visualize intramolecu... (see metadata) ( )

tspair : Top Scoring Pairs for Microarray Classification ( )

tweeDEseq : RNA-seq data analysis using the ... (see metadata) ( )

tweeDEseqCountData : RNA-seq count data employed in t... (see metadata) ( )

twilight : Estimation of local false discovery rate ( )

u133aaofav2cdf : u133aaofav2cdf ( )

u133x3p_db : Affymetrix Human X3P Array annot... (see metadata) ( )

u133x3pcdf : u133x3pcdf ( )

u133x3pprobe : Probe sequence data for microarr... (see metadata) ( )

vbmp : Variational Bayesian Multinomial Probit Regression ( )

virtualArray : Build virtual array from differe... (see metadata) ( )

vitisviniferacdf : vitisviniferacdf ( )

vitisviniferaprobe : Probe sequence data for microarr... (see metadata) ( )

vsn : Variance stabilization and calib... (see metadata) ( )

vtpnet : variant-transcription factor-phenotype networks ( )

wateRmelon : Illumina 450 methylation array n... (see metadata) ( )

waveTiling : Wavelet-Based Models for Tiling ... (see metadata) ( )

waveTilingData : waveTiling Example Data ( )

weaver : Tools and extensions for process... (see metadata) ( )

webbioc : Bioconductor Web Interface ( )

wheatcdf : wheatcdf ( )

wheatprobe : Probe sequence data for microarrays of type wheat ( )

widgetTools : Creates an interactive tcltk widget ( )

worm_db0 : Base Level Annotation databases for worm ( )

xcms : LC/MS and GC/MS Data Analysis ( )

xenopus_db0 : Base Level Annotation databases for xenopus ( )

xenopuslaeviscdf : xenopuslaeviscdf ( )

xenopuslaevisprobe : Probe sequence data for microarr... (see metadata) ( )

xlaevis2cdf : xlaevis2cdf ( )

xlaevis2probe : Probe sequence data for microarr... (see metadata) ( )

xlaevis_db : Affymetrix Xenopus laevis annota... (see metadata) ( )

xmapbridge : Export plotting files to the xma... (see metadata) ( )

xtropicaliscdf : xtropicaliscdf ( )

xtropicalisprobe : Probe sequence data for microarr... (see metadata) ( )

yaqcaffy : Affymetrix expression data quali... (see metadata) ( )

ye6100subacdf : ye6100subacdf ( )

ye6100subbcdf : ye6100subbcdf ( )

ye6100subccdf : ye6100subccdf ( )

ye6100subdcdf : ye6100subdcdf ( )

yeast2_db : Affymetrix Yeast Genome 2.0 Arra... (see metadata) ( )

yeast2cdf : yeast2cdf ( )

yeast2probe : Probe sequence data for microarrays of type yeast2 ( )

yeastCC : Spellman et al. (1998) and Prami... (see metadata) ( )

yeastExpData : Yeast Experimental Data ( )

yeastGSData : Yeast Gold Standard Data ( )

yeastNagalakshmi : Yeast genome RNA sequencing data... (see metadata) ( )

yeastRNASeq : Yeast RNA-Seq Experimental Data ... (see metadata) ( )

yeast_db0 : Base Level Annotation databases for yeast ( )

ygs98_db : Affymetrix Yeast Genome S98 Arra... (see metadata) ( )

ygs98cdf : ygs98cdf ( )

ygs98frmavecs : Vectors used by frma for microarrays of type ygs98 ( )

ygs98probe : Probe sequence data for microarrays of type ygs98 ( )

yri1kgv : expression + genotype on 79 unre... (see metadata) ( )

zebrafish_db : Affymetrix zebrafish annotation ... (see metadata) ( )

zebrafish_db0 : Base Level Annotation databases for zebrafish ( )

zebrafishcdf : zebrafishcdf ( )

zebrafishprobe : Probe sequence data for microarr... (see metadata) ( )

zlibbioc : An R packaged zlib-1.2.5 ( )

Add an ebuild in portage :

The ebuild is now in the portage tree.

You can also use layman : emerge layman then layman -a roverlay

For Paludis use this rsync : rsync://gentoo.zugaina.org/roverlay-portage

If you have a problem : ycarus(-at-)zugaina.org