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Topic: VariantAnnotation or Bayesian or MicroarrayData

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258 packages on Bioconductor tagged VariantAnnotation or Bayesian or MicroarrayData, most distinct IPs first

VariantAnnotation, Bayesian and MicroarrayData in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202644,6566
DESeq2
Differential gene expression analysis based on the negative binomial distributionMichael Love		Michael Lovesoftware28 Apr 202631,84554
edgeR
Empirical Analysis of Digital Gene Expression Data in RYunshun Chen		Yunshun Chensoftware19 Oct 202631,06510
VariantAnnotation
Annotation of Genetic VariantsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 20269,77176
pcaMethods
A collection of PCA methodsHenning Redestig		Henning Redestigsoftware28 Apr 20267,21410
apeglm
Approximate posterior estimation for GLM coefficientsAnqi Zhu		Anqi Zhusoftware28 Apr 20267,16136
maftools
Summarize, Analyze and Visualize MAF FilesAnand Mayakonda		Anand Mayakondasoftware28 Apr 20263,41926
Rsubread
Mapping, quantification and variant analysis of sequencing dataWei Shi		Wei Shisoftware28 Apr 20262,7228
infercnv
Infer Copy Number Variation from Single-Cell RNA-Seq DataChristophe Georgescu		Christophe Georgescusoftware28 Apr 20262,517194
ALDEx2
Analysis Of Differential Abundance Taking Sample and Scale Variation Into AccountGreg Gloor		Greg Gloorsoftware28 Apr 20262,31156
celda
CEllular Latent Dirichlet AllocationJoshua Campbell		Joshua Campbellsoftware28 Apr 20262,011127
MOFA2
Multi-Omics Factor Analysis v2Ricard Argelaguet		Ricard Argelaguetsoftware6 Sep 20261,79185
sesameData
Supporting Data for SeSAMe PackageWanding Zhou		Wanding Zhouexperiment5 May 20261,19872
baySeq
Empirical Bayesian analysis of patterns of differential expression in count dataSamuel Granjeaud		Samuel Granjeaudsoftware28 Apr 20261,16820
affydata
Affymetrix Data for Demonstration PurposeRobert D Shear		Robert D Shearexperiment5 May 20261,16112
PureCN
Copy number calling and SNV classification using targeted short read sequencingMarkus Riester		Markus Riestersoftware28 Apr 20261,083101
decontX
Decontamination of single cell genomics dataJoshua Campbell		Joshua Campbellsoftware28 Apr 20261,040233
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 20261,03355
scde
Single Cell Differential ExpressionEvan Biederstedt		Evan Biederstedtsoftware28 Apr 20261,03350
BASiCS
Bayesian Analysis of Single-Cell Sequencing dataCatalina Vallejos		Catalina Vallejossoftware29 Apr 2026995129
affylmGUI
GUI for limma Package with Affymetrix MicroarraysGordon Smyth		Gordon Smythsoftware28 Apr 202696755
bladderbatch
Bladder gene expression data illustrating batch effectsJeffrey T. Leek		Jeffrey T. Leekexperiment5 May 20269497
podkat
Position-Dependent Kernel Association TestUlrich Bodenhofer		Ulrich Bodenhofersoftware28 Apr 202694659
limmaGUI
GUI for limma Package With Two Color MicroarraysGordon Smyth		Gordon Smythsoftware28 Apr 202690511
DEqMS
a tool to perform statistical analysis of differential protein expression for quantitative proteomics data.Yafeng Zhu		Yafeng Zhusoftware28 Apr 202690134
normr
Normalization and difference calling in ChIP-seq dataJohannes Helmuth		Johannes Helmuthsoftware21 May 202686683
proDA
Differential Abundance Analysis of Label-Free Mass Spectrometry DataConstantin Ahlmann-Eltze		Constantin Ahlmann-Eltzesoftware28 Apr 202686428
scDD
Mixture modeling of single-cell RNA-seq data to identify genes with differential distributionsKeegan Korthauer		Keegan Korthauersoftware28 Apr 2026845117
TRONCO
TRONCO, an R package for TRanslational ONCOlogyLuca De Sano		Luca De Sanosoftware28 Apr 202684447
tigre
Transcription factor Inference through Gaussian process Reconstruction of ExpressionAntti Honkela		Antti Honkelasoftware28 Apr 202682250