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Topic: AnnotationData or Pathways or Software

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Release: Release 2.11 (2012)

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1,456 packages on Bioconductor tagged AnnotationData or Pathways or Software, most distinct IPs first

AnnotationData, Pathways and Software in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
BiocGenerics
S4 generic functions used in BioconductorHervé Pagès		Hervé Pagèssoftware14 May 202674,5745
IRanges
Foundation of integer range manipulation in BioconductorHervé Pagès		Hervé Pagèssoftware28 Apr 202668,8178
Biobase
Biobase: Base functions for BioconductorBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202664,5556
Biostrings
Efficient manipulation of biological stringsHervé Pagès		Hervé Pagèssoftware2 Sep 202658,96214
GenomicRanges
Representation and manipulation of genomic intervalsHervé Pagès		Hervé Pagèssoftware28 Apr 202656,97410
AnnotationDbi
Manipulation of SQLite-based annotations in BioconductorBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202647,94141
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
GenomeInfoDbData
Species and taxonomy ID look up tables used by GenomeInfoDbBioconductor Maintainer		Bioconductor Maintainerannotationno date on record36,7970
GO.db
A set of annotation maps describing the entire Gene OntologyBioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record33,69442
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
Rsamtools
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file importBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202630,33728
org.Hs.eg.db
Genome wide annotation for HumanBioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record29,81342
clusterProfiler
A Universal Enrichment Tool for Interpreting Omics DataGuangchuang Yu		Guangchuang Yusoftware19 Oct 202629,661138
DOSE
Disease Ontology Semantic and Enrichment analysisGuangchuang Yu		Guangchuang Yusoftware28 Apr 202628,87377
rhdf5
R Interface to HDF5Hugo Gruson		Hugo Grusonsoftware14 Sep 202627,6208
GOSemSim
GO-terms Semantic Similarity MeasuresGuangchuang Yu		Guangchuang Yusoftware30 Jun 202627,49548
rtracklayer
R interface to genome annotation files and the UCSC genome browserMichael Lawrence		Michael Lawrencesoftware28 Apr 202626,11956
graph
graph: A package to handle graph data structuresBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202625,6557
biomaRt
Interface to BioMart databases (i.e. Ensembl)Hugo Gruson		Hugo Grusonsoftware28 Apr 202624,57161
annotate
Annotation for microarraysBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202622,55744
zlibbioc
An R packaged zlib-1.2.5		no date on record21,012
GenomicFeatures
Query the gene models of a given organism/assemblyH. Pagès		H. Pagèssoftware28 Apr 202619,21874
preprocessCore
A collection of pre-processing functionsBen Bolstad		Ben Bolstadsoftware28 Apr 202619,0201
GEOquery
Get data from NCBI Gene Expression Omnibus (GEO)Sean Davis		Sean Davissoftware25 Oct 202615,96073
genefilter
genefilter: methods for filtering genes from high-throughput experimentsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202615,34052
impute
impute: Imputation for microarray dataBalasubramanian Narasimhan		Balasubramanian Narasimhansoftware28 Apr 202614,5540
multtest
Resampling-based multiple hypothesis testingKatherine S. Pollard		Katherine S. Pollardsoftware28 Apr 202614,45715
BSgenome
Software infrastructure for efficient representation of full genomes and their SNPsHervé Pagès		Hervé Pagèssoftware28 Apr 202614,37557
org.Mm.eg.db
Genome wide annotation for MouseBioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record13,52042
GSEABase
Gene set enrichment data structures and methodsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202613,34446