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Topic: VariantAnnotation or Microarray

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434 packages on Bioconductor tagged VariantAnnotation or Microarray, most distinct IPs first

VariantAnnotation and Microarray in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
AnnotationDbi
Manipulation of SQLite-based annotations in BioconductorBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202647,36841
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202644,6566
GEOquery
Get data from NCBI Gene Expression Omnibus (GEO)Sean Davis		Sean Davissoftware25 Oct 202615,49973
genefilter
genefilter: methods for filtering genes from high-throughput experimentsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202615,11052
impute
impute: Imputation for microarray dataBalasubramanian Narasimhan		Balasubramanian Narasimhansoftware28 Apr 202614,2550
multtest
Resampling-based multiple hypothesis testingKatherine S. Pollard		Katherine S. Pollardsoftware28 Apr 202614,17515
GSVA
Gene Set Variation Analysis for Microarray and RNA-Seq DataRobert Castelo		Robert Castelosoftware25 Oct 202612,44697
sva
Surrogate Variable AnalysisJeffrey T. Leek		Jeffrey T. Leeksoftware5 May 202610,78668
affyio
Tools for parsing Affymetrix data filesBen Bolstad		Ben Bolstadsoftware28 Apr 202610,3001
affy
Methods for Affymetrix Oligonucleotide ArraysRobert D. Shear		Robert D. Shearsoftware28 Apr 202610,21611
VariantAnnotation
Annotation of Genetic VariantsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 20269,77176
vsn
Variance stabilization and calibration for microarray dataWolfgang Huber		Wolfgang Hubersoftware28 Apr 20267,31133
TCGAbiolinks
TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC dataTiago Chedraoui Silva		Tiago Chedraoui Silvasoftware28 Apr 20266,713103
pathview
a tool set for pathway based data integration and visualizationWeijun Luo		Weijun Luosoftware28 Apr 20265,66750
mixOmics
Omics Data Integration ProjectDerek Lei		Derek Leisoftware28 Apr 20265,18183
DNAcopy
DNA Copy Number Data AnalysisVenkatraman E. Seshan		Venkatraman E. Seshansoftware28 Apr 20264,9160
siggenes
Multiple Testing using SAM and Efron's Empirical Bayes ApproachesHolger Schwender		Holger Schwendersoftware28 Apr 20264,61417
DECIPHER
Tools for curating, analyzing, and manipulating biological sequencesErik Wright		Erik Wrightsoftware30 Jul 20264,60316
Gviz
Plotting data and annotation information along genomic coordinatesRobert Ivanek		Robert Ivaneksoftware28 Apr 20264,416150
illuminaio
Parsing Illumina Microarray Output FilesKasper Daniel Hansen		Kasper Daniel Hansensoftware28 Apr 20264,1274
oligo
Preprocessing tools for oligonucleotide arraysBenilton Carvalho		Benilton Carvalhosoftware28 Apr 20263,92052
minfi
Analyze Illumina Infinium DNA methylation arraysKasper Daniel Hansen		Kasper Daniel Hansensoftware28 Apr 20263,714143
maftools
Summarize, Analyze and Visualize MAF FilesAnand Mayakonda		Anand Mayakondasoftware28 Apr 20263,41926
snpStats
SnpMatrix and XSnpMatrix classes and methodsDavid Clayton		David Claytonsoftware28 Apr 20263,16212
affxparser
Affymetrix File Parsing SDKKasper Daniel Hansen		Kasper Daniel Hansensoftware28 Apr 20263,0980
topGO
Enrichment Analysis for Gene OntologyFederico Marini		Federico Marinisoftware28 Apr 20263,05548
marray
Exploratory analysis for two-color spotted microarray dataYee Hwa (Jean) Yang		Yee Hwa (Jean) Yangsoftware28 Apr 20262,9857
variancePartition
Quantify and interpret drivers of variation in multilevel gene expression experimentsGabriel E. Hoffman		Gabriel E. Hoffmansoftware28 Apr 20262,89599
Rsubread
Mapping, quantification and variant analysis of sequencing dataWei Shi		Wei Shisoftware28 Apr 20262,7228
globaltest
Testing Groups of Covariates/Features for Association with a Response Variable, with Applications to Gene Set TestingJelle Goeman		Jelle Goemansoftware28 Apr 20262,68550