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First letter: S

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Release: Release 3.6 (2017)

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185 packages on Bioconductor, most distinct IPs first

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
S4Vectors
Foundation of vector-like and list-like containers in BioconductorHervé Pagès		Hervé Pagèssoftware16 Sep 202674,7547
SummarizedExperiment
A container (S4 class) for matrix-like assaysHervé Pagès		Hervé Pagèssoftware28 Apr 202653,48424
SingleCellExperiment
S4 Classes for Single Cell DataDavide Risso		Davide Rissosoftware28 Apr 202624,48325
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
sva
Surrogate Variable AnalysisJeffrey T. Leek		Jeffrey T. Leeksoftware5 May 202610,80468
scran
Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202610,13962
ShortRead
FASTQ input and manipulationBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 20268,12653
siggenes
Multiple Testing using SAM and Efron's Empirical Bayes ApproachesHolger Schwender		Holger Schwendersoftware28 Apr 20264,90117
seqLogo
Sequence logos for DNA sequence alignmentsRobert Ivanek		Robert Ivaneksoftware28 Apr 20264,6024
STRINGdb
STRINGdb - Protein-Protein Interaction Networks and Functional Enrichment AnalysisDamian Szklarczyk		Damian Szklarczyksoftware27 Oct 20264,45949
snpStats
SnpMatrix and XSnpMatrix classes and methodsDavid Clayton		David Claytonsoftware28 Apr 20263,48812
SNPRelate
Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP DataXiuwen Zheng		Xiuwen Zhengsoftware28 Apr 20262,8103
systemPipeR
systemPipeR: A Multipurpose Workflow Management System for Reproducible Data AnalysisThomas Girke		Thomas Girkesoftware28 Apr 20262,50694
survcomp
Performance Assessment and Comparison for Survival AnalysisBenjamin Haibe-Kains		Benjamin Haibe-Kainssoftware28 Apr 20262,38355
scRNAseq
Collection of Public Single-Cell RNA-Seq DatasetsAaron Lun		Aaron Lunexperiment5 May 20262,314121
SeqArray
Data management of large-scale whole-genome sequence variant calls using GDS filesXiuwen Zheng		Xiuwen Zhengsoftware31 May 20261,95519
SPIA
Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbationsAdi Laurentiu Tarca		Adi Laurentiu Tarcasoftware28 Apr 20261,83915
seqPattern
Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequencesVanja Haberle		Vanja Haberlesoftware28 Apr 20261,80818
safe
Significance Analysis of Function and ExpressionLudwig Geistlinger		Ludwig Geistlingersoftware3 May 20261,59543
splatter
Simple Simulation of Single-cell RNA Sequencing DataLuke Zappia		Luke Zappiasoftware28 Apr 20261,55361
sangerseqR
Tools for Sanger Sequencing Data in RJonathon Hill		Jonathon Hillsoftware28 Apr 20261,45249
SeqVarTools
Tools for variant dataStephanie M. Gogarten		Stephanie M. Gogartensoftware12 Jul 20261,42089
SC3
Single-Cell Consensus ClusteringVladimir Kiselev		Vladimir Kiselevsoftware28 Apr 20261,36892
scmap
A tool for unsupervised projection of single cell RNA-seq dataVladimir Kiselev		Vladimir Kiselevsoftware28 Apr 20261,27062
SNPhood
SNPhood: Investigate, quantify and visualise the epigenomic neighbourhood of SNPs using NGS dataChristian Arnold		Christian Arnoldsoftware4 Nov 20251,253103
SRAdb
A compilation of metadata from NCBI SRA and toolsJack Zhu		Jack Zhusoftware28 Apr 20261,23629
SGSeq
Splice event prediction and quantification from RNA-seq dataLeonard Goldstein		Leonard Goldsteinsoftware28 Apr 20261,22780
STATegRa
Classes and methods for multi-omics data integrationDavid Gomez-Cabrero		David Gomez-Cabrerosoftware28 Apr 20261,18746
scde
Single Cell Differential ExpressionEvan Biederstedt		Evan Biederstedtsoftware28 Apr 20261,17950
segmentSeq
Methods for identifying small RNA loci from high-throughput sequencing dataSamuel Granjeaud		Samuel Granjeaudsoftware28 Apr 20261,17059