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Topic: SingleCell or SequencingData or Preprocessing

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Release: Release 2.5 (2009)

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72 packages on Bioconductor tagged SingleCell or SequencingData or Preprocessing, most distinct IPs first

SingleCell, SequencingData and Preprocessing in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202632,39210
affy
Methods for Affymetrix Oligonucleotide ArraysRobert D. Shear		Robert D. Shearsoftware28 Apr 202610,55611
vsn
Variance stabilization and calibration for microarray dataWolfgang Huber		Wolfgang Hubersoftware28 Apr 20267,53633
oligo
Preprocessing tools for oligonucleotide arraysBenilton Carvalho		Benilton Carvalhosoftware28 Apr 20264,08752
marray
Exploratory analysis for two-color spotted microarray dataYee Hwa (Jean) Yang		Yee Hwa (Jean) Yangsoftware28 Apr 20263,3117
methylumi
Handle Illumina methylation dataSean Davis		Sean Davissoftware16 Aug 20262,825158
aroma.light
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data TypesHenrik Bengtsson		Henrik Bengtssonsoftware28 Apr 20262,4818
lumi
BeadArray Specific Methods for Illumina Methylation and Expression MicroarraysLei Huang		Lei Huangsoftware28 Apr 20262,454165
affyPLM
Methods for fitting probe-level modelsBen Bolstad		Ben Bolstadsoftware28 Apr 20262,43022
Mfuzz
Soft clustering of omics time series dataMatthias Futschik		Matthias Futschiksoftware28 Apr 20262,35316
gcrma
Background Adjustment Using Sequence InformationZ. Wu		Z. Wusoftware28 Apr 20262,28521
beadarray
Quality assessment and low-level analysis for Illumina BeadArray dataMark Dunning		Mark Dunningsoftware31 Aug 20261,74065
crlmm
Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arraysBenilton S Carvalho		Benilton S Carvalhosoftware28 Apr 20261,50465
affycomp
Graphics Toolbox for Assessment of Affymetrix Expression MeasuresRobert D. Shear		Robert D. Shearsoftware28 Apr 20261,3397
makecdfenv
CDF Environment MakerJames W. MacDonald		James W. MacDonaldsoftware28 Apr 20261,32012
puma
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)Xuejun Liu		Xuejun Liusoftware28 Apr 20261,29655
codelink
Manipulation of Codelink microarray dataDiego Diez		Diego Diezsoftware28 Apr 20261,29647
tilingArray
Transcript mapping with high-density oligonucleotide tiling arraysZhenyu Xu		Zhenyu Xusoftware28 Apr 20261,24974
CGHcall
Calling aberrations for array CGH tumor profiles.Mark van de Wiel		Mark van de Wielsoftware28 Apr 20261,23016
affylmGUI
GUI for limma Package with Affymetrix MicroarraysGordon Smyth		Gordon Smythsoftware28 Apr 20261,19455
limmaGUI
GUI for limma Package With Two Color MicroarraysGordon Smyth		Gordon Smythsoftware28 Apr 20261,16511
OLIN
Optimized local intensity-dependent normalisation of two-color microarraysMatthias Futschik		Matthias Futschiksoftware28 Apr 20261,12311
HTqPCR
Automated analysis of high-throughput qPCR dataMatthew N. McCall		Matthew N. McCallsoftware28 Apr 20261,12221
altcdfenvs
alternative CDF environments (aka probeset mappings)Laurent Gautier		Laurent Gautiersoftware28 Apr 20261,11323
AgiMicroRna
Processing and Differential Expression Analysis of Agilent microRNA chipsPedro Lopez-Romero		Pedro Lopez-Romerosoftware28 Apr 20261,105172
dyebias
The GASSCO method for correcting for slide-dependent gene-specific dye biasPhilip Lijnzaad		Philip Lijnzaadsoftware28 Apr 20261,03511
DEGseq
Identify Differentially Expressed Genes from RNA-seq dataLikun Wang		Likun Wangsoftware28 Apr 20261,03332
ABarray
Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data.Yongming Andrew Sun		Yongming Andrew Sunsoftware28 Apr 202699217
RPA
RPA: Robust Probabilistic Averaging for probe-level analysisLeo Lahti		Leo Lahtisoftware28 Apr 202695192