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Topic: Spatial or StatisticalMethod or Transcription

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Release: Release 3.16 (2022)

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914 packages on Bioconductor tagged Spatial or StatisticalMethod or Transcription, most distinct IPs first

Spatial, StatisticalMethod and Transcription in Topics

PackageMaintainerCategoryLatest versionDistinct IPs a monthNeeds
limma
Linear Models for Microarray and Omics DataGordon Smyth		Gordon Smythsoftware10 Aug 202645,9656
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
DESeq2
Differential gene expression analysis based on the negative binomial distributionMichael Love		Michael Lovesoftware28 Apr 202632,07254
treeio
Base Classes and Functions for Phylogenetic Tree Input and OutputGuangchuang Yu		Guangchuang Yusoftware30 Apr 202631,96639
clusterProfiler
A Universal Enrichment Tool for Interpreting Omics DataGuangchuang Yu		Guangchuang Yusoftware19 Oct 202629,661138
GOSemSim
GO-terms Semantic Similarity MeasuresGuangchuang Yu		Guangchuang Yusoftware30 Jun 202627,49548
graph
graph: A package to handle graph data structuresBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202625,6557
BiocSingular
Singular Value Decomposition for Bioconductor PackagesAaron Lun		Aaron Lunsoftware8 Oct 202618,88037
BiocNeighbors
Nearest Neighbor Detection for Bioconductor PackagesAaron Lun		Aaron Lunsoftware28 Apr 202616,61924
GSEABase
Gene set enrichment data structures and methodsBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202613,34446
scater
Single-Cell Analysis Toolkit for Gene Expression Data in RAlan O'Callaghan		Alan O'Callaghansoftware2 Jul 202612,63578
Rgraphviz
Provides plotting capabilities for R graph objectsKasper Daniel Hansen		Kasper Daniel Hansensoftware28 Apr 202611,26310
bluster
Clustering Algorithms for BioconductorAaron Lun		Aaron Lunsoftware28 Apr 202610,90344
sva
Surrogate Variable AnalysisJeffrey T. Leek		Jeffrey T. Leeksoftware5 May 202610,80468
SpatialExperiment
S4 Class for Spatially Resolved -omics DataDario Righelli		Dario Righellisoftware28 Apr 202610,71864
RBGL
An interface to the BOOST graph libraryBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 202610,6989
scran
Methods for Single-Cell RNA-Seq Data AnalysisAaron Lun		Aaron Lunsoftware28 Apr 202610,13962
phyloseq
Handling and analysis of high-throughput microbiome census dataPaul J. McMurdie		Paul J. McMurdiesoftware28 Apr 20268,37966
apeglm
Approximate posterior estimation for GLM coefficientsAnqi Zhu		Anqi Zhusoftware28 Apr 20267,71636
EnhancedVolcano
Publication-ready volcano plots with enhanced colouring and labelingJared Andrews		Jared Andrewssoftware28 Apr 20267,62025
pcaMethods
A collection of PCA methodsHenning Redestig		Henning Redestigsoftware28 Apr 20267,38510
graphite
GRAPH Interaction from pathway Topological EnvironmentGabriele Sales		Gabriele Salessoftware28 Apr 20267,01248
glmGamPoi
Fit a Gamma-Poisson Generalized Linear ModelConstantin Ahlmann-Eltze		Constantin Ahlmann-Eltzesoftware28 Apr 20267,00046
KEGGgraph
KEGGgraph: A graph approach to KEGG PATHWAY in R and BioconductorJitao David Zhang		Jitao David Zhangsoftware28 Apr 20266,80714
SingleR
Reference-Based Single-Cell RNA-Seq AnnotationAaron Lun		Aaron Lunsoftware10 Sep 20266,76128
TCGAbiolinks
TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC dataTiago Chedraoui Silva		Tiago Chedraoui Silvasoftware28 Apr 20266,750103
DirichletMultinomial
Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome DataMartin Morgan		Martin Morgansoftware28 Sep 20266,4909
tximport
Import and summarize transcript-level estimates for transcript- and gene-level analysisMichael Love		Michael Lovesoftware28 Apr 20265,8043
pathview
a tool set for pathway based data integration and visualizationWeijun Luo		Weijun Luosoftware28 Apr 20265,70650