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Topic: Visualization or Transcriptomics

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Release: Release 3.7 (2018)

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441 packages on Bioconductor tagged Visualization or Transcriptomics, most distinct IPs first

Visualization and Transcriptomics 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
enrichplot
Visualization of Functional Enrichment ResultGuangchuang Yu		Guangchuang Yusoftware28 Sep 202630,370128
clusterProfiler
A Universal Enrichment Tool for Interpreting Omics DataGuangchuang Yu		Guangchuang Yusoftware19 Oct 202629,661138
DOSE
Disease Ontology Semantic and Enrichment analysisGuangchuang Yu		Guangchuang Yusoftware28 Apr 202628,87377
GOSemSim
GO-terms Semantic Similarity MeasuresGuangchuang Yu		Guangchuang Yusoftware30 Jun 202627,49548
rtracklayer
R interface to genome annotation files and the UCSC genome browserMichael Lawrence		Michael Lawrencesoftware28 Apr 202626,11956
ComplexHeatmap
Make Complex HeatmapsZuguang Gu		Zuguang Gusoftware28 Apr 202623,95129
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
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
graphite
GRAPH Interaction from pathway Topological EnvironmentGabriele Sales		Gabriele Salessoftware28 Apr 20267,01248
KEGGgraph
KEGGgraph: A graph approach to KEGG PATHWAY in R and BioconductorJitao David Zhang		Jitao David Zhangsoftware28 Apr 20266,80714
TCGAbiolinks
TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC dataTiago Chedraoui Silva		Tiago Chedraoui Silvasoftware28 Apr 20266,750103
ReactomePA
Reactome Pathway AnalysisGuangchuang Yu		Guangchuang Yusoftware28 Apr 20266,720141
biovizBase
Basic graphic utilities for visualization of genomic data.Michael Lawrence		Michael Lawrencesoftware28 Apr 20266,487126
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
geneplotter
Graphics related functions for BioconductorBioconductor Package Maintainer		Bioconductor Package Maintainersoftware28 Apr 20264,91248
DECIPHER
Tools for curating, analyzing, and manipulating biological sequencesErik Wright		Erik Wrightsoftware30 Jul 20264,88216
Gviz
Plotting data and annotation information along genomic coordinatesRobert Ivanek		Robert Ivaneksoftware28 Apr 20264,687150
AUCell
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)Gert Hulselmans		Gert Hulselmanssoftware29 Apr 20264,610115
monocle
Clustering, differential expression, and trajectory analysis for single- cell RNA-SeqCole Trapnell		Cole Trapnellsoftware28 Apr 20264,48574
STRINGdb
STRINGdb - Protein-Protein Interaction Networks and Functional Enrichment AnalysisDamian Szklarczyk		Damian Szklarczyksoftware27 Oct 20264,45949
EBImage
Image processing and analysis toolbox for RAndrzej Oleś		Andrzej Oleśsoftware28 Apr 20264,23844
DropletUtils
Utilities for Handling Single-Cell Droplet DataJonathan Griffiths		Jonathan Griffithssoftware27 Sep 20264,10759
ChIPseeker
ChIPseeker for ChIP peak Annotation, Comparison, and VisualizationGuangchuang Yu		Guangchuang Yusoftware28 Apr 20263,962158
MAST
Model-based Analysis of Single Cell TranscriptomicsAndrew McDavid		Andrew McDavidsoftware28 Apr 20263,74056