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bioconductor.org "Visualization" keyword

View the packages on the bioconductor.org package registry that are tagged with the "Visualization" keyword.

Top 8.7% on bioconductor.org
regionReport 1.44.0
Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
6 versions - Latest release: 2 months ago - 1 dependent package - 36.7 thousand downloads total - 10 stars on GitHub - 1 maintainer
flowCHIC 1.44.0
Analyze flow cytometric data using histogram information
6 versions - Latest release: 2 months ago - 22.6 thousand downloads total - 1 maintainer
Top 1.9% on bioconductor.org
enrichplot 1.30.4
Visualization of Functional Enrichment Result
20 versions - Latest release: 2 months ago - 15 dependent packages - 2.19 million downloads total - 1 maintainer
Top 3.9% on bioconductor.org
pathview 1.50.0
a tool set for pathway based data integration and visualization
6 versions - Latest release: 3 months ago - 9 dependent packages - 690 thousand downloads total - 41 stars on GitHub - 1 maintainer
visiumStitched 1.2.0
Enable downstream analysis of Visium capture areas stitched together with Fiji
2 versions - Latest release: 3 months ago - 2.88 thousand downloads total - 4 stars on GitHub - 1 maintainer
SPIAT 1.12.0
Spatial Image Analysis of Tissues
10 versions - Latest release: 3 months ago - 10.8 thousand downloads total - 24 stars on GitHub - 1 maintainer
Top 5.6% on bioconductor.org
RDRToolbox 1.60.0
A package for nonlinear dimension reduction with Isomap and LLE.
6 versions - Latest release: 2 months ago - 52 thousand downloads total - 1 maintainer
deltaGseg 1.50.0
deltaGseg
6 versions - Latest release: 2 months ago - 25.5 thousand downloads total - 1 maintainer
Top 3.0% on bioconductor.org
metagenomeSeq 1.52.0
Statistical analysis for sparse high-throughput sequencing
7 versions - Latest release: 2 months ago - 11 dependent packages - 246 thousand downloads total - 71 stars on GitHub - 1 maintainer
CDI 1.8.0
Clustering Deviation Index (CDI)
6 versions - Latest release: 2 months ago - 5.57 thousand downloads total - 5 stars on GitHub - 1 maintainer
vsclust 1.12.0
Feature-based variance-sensitive quantitative clustering
6 versions - Latest release: 2 months ago - 6.76 thousand downloads total - 1 maintainer
MicrobiomeProfiler 1.16.0
An R/shiny package for microbiome functional enrichment analysis
6 versions - Latest release: 3 months ago - 10.7 thousand downloads total - 36 stars on GitHub - 1 maintainer
GenomicDistributions 1.18.0
GenomicDistributions: fast analysis of genomic intervals with Bioconductor
6 versions - Latest release: 3 months ago - 11.9 thousand downloads total - 1 maintainer
sechm 1.18.0
sechm: Complex Heatmaps from a SummarizedExperiment
6 versions - Latest release: 2 months ago - 1 dependent package - 13.4 thousand downloads total - 4 stars on GitHub - 1 maintainer
maser 1.28.0
Mapping Alternative Splicing Events to pRoteins
6 versions - Latest release: 3 months ago - 20.1 thousand downloads total - 21 stars on GitHub - 1 maintainer
geomeTriD 1.4.1
A R/Bioconductor package for interactive 3D plot of epigenetic data or single cell data
6 versions - Latest release: about 1 month ago - 4.22 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 6.2% on bioconductor.org
genomation 1.42.0
Summary, annotation and visualization of genomic data
7 versions - Latest release: 2 months ago - 6 dependent packages - 124 thousand downloads total - 3 maintainers
interacCircos 1.20.0
The Generation of Interactive Circos Plot
6 versions - Latest release: 2 months ago - 9.16 thousand downloads total - 1 maintainer
methylscaper 1.18.0
Visualization of Methylation Data
7 versions - Latest release: 3 months ago - 8.64 thousand downloads total - 1 stars on GitHub - 1 maintainer
sangeranalyseR 1.20.0
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R
6 versions - Latest release: 2 months ago - 21.7 thousand downloads total - 1 maintainer
Top 3.4% on bioconductor.org
FlowSOM 2.18.0
Using self-organizing maps for visualization and interpretation of cytometry data
6 versions - Latest release: 2 months ago - 3 dependent packages - 194 thousand downloads total - 1 maintainer
Top 3.8% on bioconductor.org
aroma.light 3.40.0
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Da...
6 versions - Latest release: 3 months ago - 3 dependent packages - 416 thousand downloads total - 1 stars on GitHub - 1 maintainer
OGRE 1.14.0
Calculate, visualize and analyse overlap between genomic regions
6 versions - Latest release: 2 months ago - 7.4 thousand downloads total - 2 stars on GitHub - 1 maintainer
BioCartaImage 1.8.0
BioCarta Pathway Images
5 versions - Latest release: 2 months ago - 5.53 thousand downloads total - 11 stars on GitHub - 1 maintainer
matchBox 1.52.0
Utilities to compute, compare, and plot the agreement between ordered vectors of features (ie. di...
6 versions - Latest release: 2 months ago - 25.5 thousand downloads total - 2 maintainers
CytoMDS 1.6.1
Low Dimensions projection of cytometry samples
5 versions - Latest release: about 1 month ago - 5.04 thousand downloads total - 1 stars on GitHub - 1 maintainer
ggtreeDendro 1.12.0
Drawing 'dendrogram' using 'ggtree'
6 versions - Latest release: 2 months ago - 7.04 thousand downloads total - 1 maintainer
epivizrServer 1.38.0
WebSocket server infrastructure for epivizr apps and packages
6 versions - Latest release: 2 months ago - 5 dependent packages - 22.8 thousand downloads total - 1 maintainer
GSCA 2.40.0
GSCA: Gene Set Context Analysis
6 versions - Latest release: 3 months ago - 22.9 thousand downloads total - 1 maintainer
mobileRNA 1.6.1
mobileRNA: Investigate the RNA mobilome & population-scale changes
9 versions - Latest release: 5 days ago - 4.93 thousand downloads total - 1 maintainer
CCPlotR 1.8.0
Plots For Visualising Cell-Cell Interactions
5 versions - Latest release: 3 months ago - 6.38 thousand downloads total - 43 stars on GitHub - 1 maintainer
SurfR 1.6.0
Surface Protein Prediction and Identification
10 versions - Latest release: 3 months ago - 5.26 thousand downloads total - 0 stars on GitHub - 1 maintainer
traviz 1.15.0
Trajectory functions for visualization and interpretation.
6 versions - Latest release: 3 months ago - 5.43 thousand downloads total - 1 maintainer
ncRNAtools 1.20.0
An R toolkit for non-coding RNA
6 versions - Latest release: 2 months ago - 9.23 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 7.7% on bioconductor.org
GeneOverlap 1.46.0
Test and visualize gene overlaps
6 versions - Latest release: 3 months ago - 1 dependent package - 67.8 thousand downloads total - 1 maintainer
scPipe 2.10.0
Pipeline for single cell multi-omic data pre-processing
6 versions - Latest release: 3 months ago - 24.9 thousand downloads total - 69 stars on GitHub - 1 maintainer
Top 5.2% on bioconductor.org
DEGreport 1.46.0
Report of DEG analysis
10 versions - Latest release: 3 months ago - 1 dependent package - 88.1 thousand downloads total - 26 stars on GitHub - 1 maintainer
bettr 1.6.0
A Better Way To Explore What Is Best
4 versions - Latest release: 3 months ago - 4.88 thousand downloads total - 3 stars on GitHub - 1 maintainer
MatrixQCvis 1.18.0
Shiny-based interactive data-quality exploration for omics data
6 versions - Latest release: 2 months ago - 10.8 thousand downloads total - 1 maintainer
RGraph2js 1.38.0
Convert a Graph into a D3js Script
6 versions - Latest release: 2 months ago - 16.9 thousand downloads total - 1 maintainer
Top 6.9% on bioconductor.org
biocGraph 1.72.0
Graph examples and use cases in Bioinformatics
6 versions - Latest release: 2 months ago - 1 dependent package - 63.4 thousand downloads total - 1 maintainer
ggtreeSpace 1.6.0
Visualizing Phylomorphospaces using 'ggtree'
4 versions - Latest release: 3 months ago - 4.57 thousand downloads total - 5 stars on GitHub - 1 maintainer
Top 7.7% on bioconductor.org
GDCRNATools 1.30.0
GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data i...
6 versions - Latest release: 3 months ago - 46.9 thousand downloads total - 2 maintainers
SGCP 1.10.0
SGCP: A semi-supervised pipeline for gene clustering using self-training approach in gene co-expr...
9 versions - Latest release: 5 days ago - 7.32 thousand downloads total - 2 stars on GitHub - 1 maintainer
SpatialOmicsOverlay 1.10.0
Spatial Overlay for Omic Data from Nanostring GeoMx Data
7 versions - Latest release: 3 months ago - 6.77 thousand downloads total - 1 maintainer
Top 5.8% on bioconductor.org
fabia 2.56.0
FABIA: Factor Analysis for Bicluster Acquisition
6 versions - Latest release: 2 months ago - 3 dependent packages - 59.1 thousand downloads total - 1 maintainer
flowGraph 1.18.0
Identifying differential cell populations in flow cytometry data accounting for marker frequency
6 versions - Latest release: 3 months ago - 8.79 thousand downloads total - 1 stars on GitHub - 1 maintainer
nullranges 1.16.3
Generation of null ranges via bootstrapping or covariate matching
7 versions - Latest release: about 1 month ago - 1 dependent package - 15.4 thousand downloads total - 22 stars on GitHub - 1 maintainer
CopyNumberPlots 1.26.0
Create Copy-Number Plots using karyoploteR functionality
7 versions - Latest release: 3 months ago - 2 dependent packages - 16.1 thousand downloads total - 6 stars on GitHub - 1 maintainer
signeR 2.12.0
Empirical Bayesian approach to mutational signature discovery
6 versions - Latest release: 3 months ago - 21.9 thousand downloads total - 13 stars on GitHub - 1 maintainer
compEpiTools 1.44.0
Tools for computational epigenomics
6 versions - Latest release: 2 months ago - 24.9 thousand downloads total - 1 maintainer
NormalyzerDE 1.28.0
Evaluation of normalization methods and calculation of differential expression analysis statistics
6 versions - Latest release: 2 months ago - 25.3 thousand downloads total - 25 stars on GitHub - 1 maintainer
Top 9.2% on bioconductor.org
CGHregions 1.68.0
Dimension Reduction for Array CGH Data with Minimal Information Loss.
6 versions - Latest release: 2 months ago - 1 dependent package - 42.9 thousand downloads total - 1 maintainer
ggsc 1.8.0
Visualizing Single Cell and Spatial Transcriptomics
7 versions - Latest release: 3 months ago - 7.28 thousand downloads total - 30 stars on GitHub - 1 maintainer
Top 2.8% on bioconductor.org
DECIPHER 3.6.0
Tools for curating, analyzing, and manipulating biological sequences
6 versions - Latest release: 2 months ago - 7 dependent packages - 352 thousand downloads total - 1 maintainer
escheR 1.10.0
Unified multi-dimensional visualizations with Gestalt principles
7 versions - Latest release: 3 months ago - 2 dependent packages - 8.58 thousand downloads total - 7 stars on GitHub - 1 maintainer
seqcombo 1.32.0
Visualization Tool for Genetic Reassortment
6 versions - Latest release: 2 months ago - 14.7 thousand downloads total - 21 stars on GitHub - 1 maintainer
tRNA 1.28.0
Analyzing tRNA sequences and structures
7 versions - Latest release: 2 months ago - 2 dependent packages - 17.9 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 4.7% on bioconductor.org
interactiveDisplayBase 1.48.0
Base package for enabling powerful shiny web displays of Bioconductor objects
6 versions - Latest release: 2 months ago - 3 dependent packages - 1.02 million downloads total - 1 maintainer
Top 8.8% on bioconductor.org
hyperdraw 1.62.0
Visualizing Hypergaphs
6 versions - Latest release: 3 months ago - 1 dependent package - 41.6 thousand downloads total - 1 maintainer
Top 2.4% on bioconductor.org
DEXSeq 1.56.0
Inference of differential exon usage in RNA-Seq
7 versions - Latest release: 2 months ago - 10 dependent packages - 340 thousand downloads total - 1 maintainer
Top 2.2% on bioconductor.org
geneplotter 1.88.0
Graphics related functions for Bioconductor
6 versions - Latest release: 2 months ago - 9 dependent packages - 2.77 million downloads total - 1 maintainer
Basic4Cseq 1.46.0
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
6 versions - Latest release: 2 months ago - 29.9 thousand downloads total - 1 maintainer
Top 9.9% on bioconductor.org
tilingArray 1.88.0
Transcript mapping with high-density oligonucleotide tiling arrays
6 versions - Latest release: 2 months ago - 2 dependent packages - 60.3 thousand downloads total - 1 maintainer
cummeRbund 2.51.0
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
6 versions - Latest release: 2 months ago - 594 thousand downloads total - 1 maintainer
Top 9.3% on bioconductor.org
HELP 1.68.0
Tools for HELP data analysis
6 versions - Latest release: 2 months ago - 37.1 thousand downloads total - 1 maintainer
clstutils 1.58.0
Tools for performing taxonomic assignment
6 versions - Latest release: 2 months ago - 30.2 thousand downloads total - 1 maintainer
scQTLtools 1.2.3
scQTLtools: an R/Bioconductor package for comprehensive identification and visualization of singl...
5 versions - Latest release: 5 days ago - 2.28 thousand downloads total - 0 stars on GitHub - 1 maintainer
gtrellis 1.42.0
Genome Level Trellis Layout
6 versions - Latest release: 3 months ago - 1 dependent package - 33.6 thousand downloads total - 41 stars on GitHub - 1 maintainer
chevreulShiny 1.2.0
Tools for managing SingleCellExperiment objects as projects
3 versions - Latest release: about 1 month ago - 2.33 thousand downloads total - 0 stars on GitHub - 1 maintainer
GenomicPlot 1.8.1
Plot profiles of next generation sequencing data in genomic features
17 versions - Latest release: about 1 month ago - 7.42 thousand downloads total - 6 stars on GitHub - 1 maintainer
Top 8.8% on bioconductor.org
trackViewer 1.46.0
A R/Bioconductor package with web interface for drawing elegant interactive tracks or lollipop pl...
7 versions - Latest release: 2 months ago - 3 dependent packages - 85.8 thousand downloads total - 1 maintainer
esetVis 1.36.0
Visualizations of expressionSet Bioconductor object
7 versions - Latest release: 2 months ago - 19.6 thousand downloads total - 1 maintainer
Top 5.6% on bioconductor.org
HTqPCR 1.64.0
Automated analysis of high-throughput qPCR data
6 versions - Latest release: 2 months ago - 2 dependent packages - 60.7 thousand downloads total - 1 maintainer
cogena 1.44.0
co-expressed gene-set enrichment analysis
6 versions - Latest release: 3 months ago - 26.4 thousand downloads total - 12 stars on GitHub - 1 maintainer
ivygapSE 1.32.0
A SummarizedExperiment for Ivy-GAP data
6 versions - Latest release: 3 months ago - 14.4 thousand downloads total - 1 maintainer
animalcules 1.26.0
Interactive microbiome analysis toolkit
8 versions - Latest release: 2 months ago - 21.4 thousand downloads total - 56 stars on GitHub - 1 maintainer
Top 6.3% on bioconductor.org
ChemmineR 3.62.0
Cheminformatics Toolkit for R
6 versions - Latest release: 2 months ago - 8 dependent packages - 528 thousand downloads total - 16 stars on GitHub - 1 maintainer
ELViS 1.2.0
An R Package for Estimating Copy Number Levels of Viral Genome Segments Using Base-Resolution Rea...
2 versions - Latest release: 3 months ago - 2.49 thousand downloads total - 0 stars on GitHub - 1 maintainer
timescape 1.34.0
Patient Clonal Timescapes
6 versions - Latest release: 2 months ago - 17.1 thousand downloads total - 1 maintainer
NanoMethViz 3.6.0
Visualise methylation data from Oxford Nanopore sequencing
6 versions - Latest release: 3 months ago - 13.1 thousand downloads total - 32 stars on GitHub - 1 maintainer
TCseq 1.34.0
Time course sequencing data analysis
6 versions - Latest release: 2 months ago - 39.5 thousand downloads total - 1 maintainer
DESpace 2.2.2
DESpace: a framework to discover spatially variable genes and differential spatial patterns acros...
8 versions - Latest release: about 1 month ago - 7.68 thousand downloads total - 5 stars on GitHub - 1 maintainer
drawProteins 1.29.0
Package to Draw Protein Schematics from Uniprot API output
7 versions - Latest release: 3 months ago - 1 dependent package - 25.2 thousand downloads total - 35 stars on GitHub - 1 maintainer
Top 3.4% on bioconductor.org
Mfuzz 2.70.0
Soft clustering of omics time series data
6 versions - Latest release: 3 months ago - 5 dependent packages - 178 thousand downloads total - 1 maintainer
MineICA 1.49.0
Analysis of an ICA decomposition obtained on genomics data
6 versions - Latest release: 2 months ago - 31.2 thousand downloads total - 1 maintainer
scTreeViz 1.16.0
R/Bioconductor package to interactively explore and visualize single cell RNA-seq datasets with h...
7 versions - Latest release: 2 months ago - 8.08 thousand downloads total - 1 maintainer
fobitools 1.18.0
Tools for Manipulating the FOBI Ontology
6 versions - Latest release: 3 months ago - 8.82 thousand downloads total - 1 stars on GitHub - 1 maintainer
regutools 1.22.0
regutools: an R package for data extraction from RegulonDB
6 versions - Latest release: 3 months ago - 10.7 thousand downloads total - 5 stars on GitHub - 1 maintainer
clustComp 1.38.0
Clustering Comparison Package
6 versions - Latest release: 2 months ago - 17.4 thousand downloads total - 1 maintainer
vidger 1.30.0
Create rapid visualizations of RNAseq data in R
6 versions - Latest release: 3 months ago - 19.6 thousand downloads total - 19 stars on GitHub - 1 maintainer
countsimQC 1.28.0
Compare Characteristic Features of Count Data Sets
6 versions - Latest release: 2 months ago - 1 dependent package - 22.4 thousand downloads total - 29 stars on GitHub - 1 maintainer
hapFabia 1.52.0
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rar...
6 versions - Latest release: 2 months ago - 29.3 thousand downloads total - 1 maintainer
CPSM 1.2.0
CPSM: Cancer patient survival model
2 versions - Latest release: 3 months ago - 2.45 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 5.9% on bioconductor.org
survcomp 1.60.0
Performance Assessment and Comparison for Survival Analysis
6 versions - Latest release: 2 months ago - 4 dependent packages - 187 thousand downloads total - 1 maintainer
SETA 1.0.0
Single Cell Ecological Taxonomic Analysis
1 version - Latest release: 3 months ago - 688 downloads total - 1 maintainer
Dune 1.22.0
Improving replicability in single-cell RNA-Seq cell type discovery
6 versions - Latest release: 2 months ago - 10.3 thousand downloads total - 1 maintainer
microbiomeDASim 1.24.0
Microbiome Differential Abundance Simulation
6 versions - Latest release: 3 months ago - 10.1 thousand downloads total - 3 stars on GitHub - 1 maintainer
GeneBreak 1.40.0
Gene Break Detection
6 versions - Latest release: 3 months ago - 19 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 9.8% on bioconductor.org
FGNet 3.44.0
Functional Gene Networks derived from biological enrichment analyses
6 versions - Latest release: 2 months ago - 1 dependent package - 34.7 thousand downloads total - 1 maintainer
Related Keywords
Software 482 Sequencing 149 GeneExpression 135 RNASeq 111 Clustering 100 ImmunoOncology 94 DifferentialExpression 82 QualityControl 76 SingleCell 75 DataImport 71 Preprocessing 71 Microarray 64 Transcriptomics 64 MultipleComparison 57 GeneSetEnrichment 51 DataRepresentation 50 Transcription 48 Annotation 46 Normalization 46 DimensionReduction 41 Genetics 40 GUI 39 Proteomics 38 GraphAndNetwork 38 Pathways 38 Coverage 38 bioconductor 37 r 37 CellBasedAssays 36 Infrastructure 31 Classification 30 Network 29 GO 28 Metabolomics 27 StatisticalMethod 27 FunctionalGenomics 26 ShinyApps 24 FlowCytometry 23 MassSpectrometry 22 ReportWriting 22 PrincipalComponent 22 BiomedicalInformatics 22 CopyNumberVariation 22 ChIPSeq 22 Spatial 19 BatchEffect 19 Microbiome 19 Alignment 18 Regression 18 SystemsBiology 18 bioinformatics 17 KEGG 17 AlternativeSplicing 16 FeatureExtraction 15 CellBiology 15 WorkflowStep 14 GenomeAnnotation 14 DNAMethylation 13 GeneTarget 13 TimeCourse 13 DNASeq 13 GeneRegulation 12 ExperimentalDesign 12 NetworkEnrichment 11 Epigenetics 11 SequenceMatching 11 rstats 11 visualization 10 Bayesian 10 MicrotitrePlateAssay 10 ThirdPartyClient 10 GenomicVariation 10 Reactome 10 Metagenomics 10 OneChannel 9 DifferentialMethylation 9 shiny 9 DifferentialSplicing 9 Cheminformatics 8 SNP 8 transcriptomics 8 GeneticVariability 8 TwoChannel 8 MultipleSequenceAlignment 8 bioconductor-package 7 ATACSeq 7 single-cell 7 Phylogenetics 7 MotifAnnotation 7 NetworkInference 7 Survival 7 FunctionalPrediction 7 r-package 7 gene-expression 6 aCGH 6 Pharmacogenomics 6 Pharmacogenetics 6 single-cell-rna-seq 6 genomics 6 HiC 5