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Topic: SingleCell or Genetics or ExperimentData

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Release: Release 3.11 (2020)

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888 packages on Bioconductor tagged SingleCell or Genetics or ExperimentData, most distinct IPs first

SingleCell, Genetics and ExperimentData in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
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
SummarizedExperiment
A container (S4 class) for matrix-like assaysHervé Pagès		Hervé Pagèssoftware28 Apr 202653,48424
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
GenomeInfoDb
Utilities for manipulating chromosome names, including modifying them to follow a particular naming styleHervé Pagès		Hervé Pagèssoftware28 Apr 202637,35620
ggtree
an R package for visualization of tree and annotation dataGuangchuang Yu		Guangchuang Yusoftware29 Oct 202634,37279
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
GenomicAlignments
Representation and manipulation of short genomic alignmentsHervé Pagès		Hervé Pagèssoftware28 Apr 202627,00641
SingleCellExperiment
S4 Classes for Single Cell DataDavide Risso		Davide Rissosoftware28 Apr 202624,48325
HDF5Array
HDF5 datasets as array-like objects in RHervé Pagès		Hervé Pagèssoftware28 Apr 202620,53728
GenomicFeatures
Query the gene models of a given organism/assemblyH. Pagès		H. Pagèssoftware28 Apr 202619,21874
BSgenome
Software infrastructure for efficient representation of full genomes and their SNPsHervé Pagès		Hervé Pagèssoftware28 Apr 202614,37557
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
ensembldb
Utilities to create and use Ensembl-based annotation databasesJohannes Rainer		Johannes Rainersoftware25 May 202611,00080
scran
Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202610,13962
VariantAnnotation
Annotation of Genetic VariantsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 20269,66476
glmGamPoi
Fit a Gamma-Poisson Generalized Linear ModelConstantin Ahlmann-Eltze		Constantin Ahlmann-Eltzesoftware28 Apr 20267,00046
SingleR
Reference-Based Single-Cell RNA-Seq AnnotationAaron Lun		Aaron Lunsoftware10 Sep 20266,76128
TxDb.Hsapiens.UCSC.hg19.knownGene
Annotation package for TxDb object(s)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record6,25875
scDblFinder
scDblFinderPierre-Luc Germain		Pierre-Luc Germainsoftware14 Oct 20266,116121
TCGAbiolinksGUI.data
Data for the TCGAbiolinksGUI packageTiago Chedraoui Silva		Tiago Chedraoui Silvaexperiment5 May 20265,7580
batchelor
Single-Cell Batch Correction MethodsAaron Lun		Aaron Lunsoftware28 Apr 20265,72056
pathview
a tool set for pathway based data integration and visualizationWeijun Luo		Weijun Luosoftware28 Apr 20265,70650
BSgenome.Hsapiens.UCSC.hg38
Full genomic sequences for Homo sapiens (UCSC genome hg38)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record4,98960
DECIPHER
Tools for curating, analyzing, and manipulating biological sequencesErik Wright		Erik Wrightsoftware30 Jul 20264,88216
slingshot
Tools for ordering single-cell sequencingKelly Street		Kelly Streetsoftware28 Apr 20264,68438
AUCell
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)Gert Hulselmans		Gert Hulselmanssoftware29 Apr 20264,610115
ALL
A data packageRobert Gentleman		Robert Gentlemanexperiment5 May 20264,1717
DropletUtils
Utilities for Handling Single-Cell Droplet DataJonathan Griffiths		Jonathan Griffithssoftware27 Sep 20264,10759
TxDb.Hsapiens.UCSC.hg38.knownGene
Annotation package for TxDb object(s)Bioconductor Package Maintainer		Bioconductor Package Maintainerannotationno date on record3,91975