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Topic: VariantAnnotation or Bayesian or Classification

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Release: Release 3.13 (2021)

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246 packages on Bioconductor tagged VariantAnnotation or Bayesian or Classification, most distinct IPs first

VariantAnnotation, Bayesian and Classification 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
BiocNeighbors
Nearest Neighbor Detection for Bioconductor PackagesAaron Lun		Aaron Lunsoftware28 Apr 202615,94924
VariantAnnotation
Annotation of Genetic VariantsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 20269,77176
phyloseq
Handling and analysis of high-throughput microbiome census dataPaul J. McMurdie		Paul J. McMurdiesoftware28 Apr 20268,12266
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
SingleR
Reference-Based Single-Cell RNA-Seq AnnotationAaron Lun		Aaron Lunsoftware10 Sep 20266,58928
DirichletMultinomial
Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome DataMartin Morgan		Martin Morgansoftware28 Sep 20266,1479
mixOmics
Omics Data Integration ProjectDerek Lei		Derek Leisoftware28 Apr 20265,18183
dada2
Accurate, high-resolution sample inference from amplicon sequencing dataBenjamin Callahan		Benjamin Callahansoftware28 Apr 20263,90075
maftools
Summarize, Analyze and Visualize MAF FilesAnand Mayakonda		Anand Mayakondasoftware28 Apr 20263,41926
interactiveDisplayBase
Base package for enabling powerful shiny web displays of Bioconductor objects		no date on record2,910
decontam
Identify Contaminants in Marker-gene and Metagenomics Sequencing DataBenjamin Callahan		Benjamin Callahansoftware28 Apr 20262,80630
ropls
PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis and feature selection of omics dataEtienne A. Thevenot		Etienne A. Thevenotsoftware28 Apr 20262,73697
Rsubread
Mapping, quantification and variant analysis of sequencing dataWei Shi		Wei Shisoftware28 Apr 20262,7228
metagenomeSeq
Statistical analysis for sparse high-throughput sequencingJoseph N. Paulson		Joseph N. Paulsonsoftware28 Apr 20262,72232
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
fastseg
fastseg - a fast segmentation algorithmAlexander Blume		Alexander Blumesoftware28 Apr 20261,72813
quantiseqr
Quantification of the Tumor Immune contexture from RNA-seq dataFederico Marini		Federico Marinisoftware28 Apr 20261,59258
MLInterfaces
Uniform interfaces to R machine learning procedures for data in Bioconductor containersVincent Carey		Vincent Careysoftware28 Apr 20261,417120
pRoloc
A unifying bioinformatics framework for spatial proteomicsLisa Breckels		Lisa Breckelssoftware28 Apr 20261,400230
scRepertoire
A toolkit for single-cell immune receptor profilingNick Borcherding		Nick Borcherdingsoftware28 Apr 20261,393115
scds
In-Silico Annotation of Doublets for Single Cell RNA Sequencing DataDennis Kostka		Dennis Kostkasoftware28 Apr 20261,36645
genefu
Computation of Gene Expression-Based Signatures in Breast CancerBenjamin Haibe-Kains		Benjamin Haibe-Kainssoftware28 Apr 20261,358116
SC3
Single-Cell Consensus ClusteringVladimir Kiselev		Vladimir Kiselevsoftware28 Apr 20261,17592