Biocview "Visualization"

A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
Accelerated similarity searching of small molecules
Accelerated similarity searching of small molecules
Accelerated similarity searching of small molecules
Accelerated similarity searching of small molecules
Add-on of the SQUAD Software
Add-on of the SQUAD Software
A dynamic visualization tool of multi-level data
A dynamic visualization tool of multi-level data
A dynamic visualization tool of multi-level data
Affymetrix Quality Assessment and Analysis Tool
Affymetrix Quality Assessment and Analysis Tool
A Framework for Quality Control
A Framework for Quality Control
A Framework for Quality Control
A framework for sharing interactive data and plots from R through the web.
A framework for sharing interactive data and plots from R through the web.
A generic R plugin dispatcher for BASE
A gene-signature ranking method based on sample density in PCA space
A k-tables approach to integrate multiple Omics-Data
A k-tables approach to integrate multiple Omics-Data
alpine
alpine
alpine
AmiGO visualize R interface
AmiGO visualize R interface
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Analysis of Agilent Microarray Data [draft]
Analysis of amplicon enrichment panels
Analysis of amplicon enrichment panels
Analysis of an ICA decomposition obtained on genomics data
Analysis of an ICA decomposition obtained on genomics data
Analysis of Brain Imaging Data
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Analysis of cell-based screens
Analysis of cell-based screens - revised version of cellHTS
Analysis of cell-based screens - revised version of cellHTS
Analysis of high-throughput microscopy-based screens
Analysis of high-throughput microscopy-based screens
Analysis of Illumina microarray data [A DRAFT - TRUE]
Analysis of Large Affymetrix Microarray Data Sets
Analysis of Large Affymetrix Microarray Data Sets
Analysis of sequencing data from ribosome profiling experiments
Analysis of sequencing data from ribosome profiling experiments
Analytical Tools for MassArray Data
Analytical Tools for MassArray Data
Analyze flow cytometer data to determine sample ploidy
Analyze flow cytometer data to determine sample ploidy
Analyze flow cytometer data to determine sample ploidy
Analyze flow cytometric data using gate information
Analyze flow cytometric data using gate information
Analyze flow cytometric data using histogram information
Analyze flow cytometric data using histogram information
An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps
An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps
An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps
An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps.
Annotation, analysis and visualization of circRNA data
Annotation and analysis of biological dynamical systems using flow cytometry
Annotation and analysis of biological dynamical systems using flow cytometry
Annotation and analysis of biological dynamical systems using flow cytometry
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
An R Package for Adjusting Bias in Gene Set Enrichment Analysis
An R package for analyzing gene expression data with Principal / Independent Component Analysis
An R package for nucleosome positioning prediction
An R package for nucleosome positioning prediction
An R package for proteomics data quality control
An R package for proteomics data quality control
An R package for proteomics data quality control
An R package for qualitative biclustering in support of gene co-expression analyses
An R package for qualitative biclustering in support of gene co-expression analyses
An R Package for retrieving data from DAVID into R objects using Web Services API.
An R Package for retrieving data from DAVID into R objects using Web Services API.
An R package for RNA visualization and analysis
An R package for RNA visualization and analysis
An R Package for Unbiased Splicing Pathway Analysis
An R package for useful bioinformatics wrappers
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
An R pipeline for .bed file annotation, comparing GO term enrichment between gene sets and data visualisation
An R pipeline for .bed file annotation, comparing GO term enrichment between gene sets and data visualisation
An R pipeline for .bed file annotation, comparing GO term enrichment between gene sets and data visualisation
An R pipeline for .bed file annotation, comparing GO term enrichment between gene sets and data visualisation
A package for importing and analyzing data from Roche's Genome Sequencer System
A package for importing and analyzing data from Roche's Genome Sequencer System
A package for nonlinear dimension reduction with Isomap and LLE.
A package for nonlinear dimension reduction with Isomap and LLE.
A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites
A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites
A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites
A package for survival time prediction based on a piecewise baseline hazard Cox regression model.
A package for survival time prediction based on a piecewise baseline hazard Cox regression model.
A package for variant peptides detection and visualization in shotgun proteomics.
A package for variant peptides detection and visualization in shotgun proteomics.
A package for visualizing complex biological network
A package for visualizing complex biological network
A shiny GUI for MSGFplus
A shiny GUI for MSGFplus
A shiny GUI for MSGFplus
A shiny GUI for MSGFplus
A small RNA-seq visualizer and analysis toolkit
A small RNA-seq visualizer and analysis toolkit
Assessing array quality on spotted arrays
Assessing array quality on spotted arrays
A SummarizedExperiment for Ivy-GAP data
A tool for unsupervised projection of single cell RNA-seq data
A tool for unsupervised projection of single cell RNA-seq data
a tool set for pathway based data integration and visualization
a tool set for pathway based data integration and visualization
A tool to use GO Subtrees to Tag and Annotate Genes within a set
A tool to use GO Subtrees to Tag and Annotate Genes within a set
A tool to use GO Subtrees to Tag and Annotate Genes within a set
Augmented functionality for analysis of epigenomic variance
Automated analysis of high-throughput qPCR data
Automated analysis of high-throughput qPCR data
A web interface for gene-set enrichment analyses
A web interface for gene-set enrichment analyses
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base package for enabling powerful shiny web displays of Bioconductor objects
Base package for enabling powerful shiny web displays of Bioconductor objects
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
Basic graphic utilities for visualization of genomic data.
Basic graphic utilities for visualization of genomic data.
Batch Effects Quality Control Software
Batch Effects Quality Control Software
Benchmarks for RNA-seq Quantification Pipelines
Benchmarks for RNA-seq Quantification Pipelines
Benchmarks for RNA-seq Quantification Pipelines
Broadcast data between R and Gaggle
Broadcast data between R and Gaggle
BrowserHeatmap: a BrowserViz subclass for displaying heatmaps
BrowserVizDemo2: How to add a feature to BrowserVizDemo
BrowserVizDemo: How to subclass BrowserViz
BrowserVizDemo: How to subclass BrowserViz
BrowserViz: interactive R/browser graphics using websockets and JSON
BrowserViz: interactive R/browser graphics using websockets and JSON
Calculate growth-rate inhibition (GR) metrics
Calculate growth-rate inhibition (GR) metrics
Calculate growth-rate inhibition (GR) metrics
Calculate growth-rate inhibition (GR) metrics
Calculate overlaps and enrichment between genomic variants and genomic features or segmentations
Calling aberrations for array CGH tumor profiles.
Calling aberrations for array CGH tumor profiles.
Calling aberrations for array CGH tumor profiles.
Cancer subtypes identification, validation and visualization based on genomic data
Cancer subtypes identification, validation and visualization based on multiple genomic data sets
Cancer subtypes identification, validation and visualization based on multiple genomic data sets
Cell OrderiNg by FluorEScence Signal
Cell OrderiNg by FluorEScence Signal
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
ChIPexoQual
ChIPexoQual
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
ChIPUtils - A package to perform exploratory analysis of ChIP data and most commonly used QC measures
chroGPS: visualizing the epigenome
chroGPS: visualizing the epigenome
Classification of alternative splicing and prediction of coding potential from RNA-seq data.
Classification of alternative splicing and prediction of coding potential from RNA-seq data.
Clonal ordering and visualization
Cluster and Tree Conversion.
Cluster and Tree Conversion.
Clustering and Visualizing RNA-Seq Expression Data using Grade of Membership Models
Clustering and Visualizing RNA-Seq Expression Data using Grade of Membership Models
Clustering and Visualizing RNA-Seq Expression Data using Grade of Membership Models
Clustering Comparison Package
Clustering Comparison Package
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
Clustering for Flow Cytometry
Clustering for Flow Cytometry
Clustering for Flow Cytometry
CNE Detection and Visualization
CNE Detection and Visualization
CNE Detection and Visualization
co-expressed gene-set enrichment analysis
co-expressed gene-set enrichment analysis
co-expressed gene-set enrichment analysis
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns.
Compare Characteristic Features of Count Data Sets
Comprehensive analysis of transciptome data
Comprehensive analysis of transciptome data
Computational comparisons of cytometry profiles
Computation of Gene Expression-Based Signatures in Breast Cancer
Computation of Gene Expression-Based Signatures in Breast Cancer
Computation of Gene Expression-Based Signatures in Breast Cancer
Condensed, overlapped plotting of genomic data tracks
Constraint based modeling in R using metabolic reconstruction databases
Constraint based modeling in R using metabolic reconstruction databases
Control IGB From R
Convenience package for solving some liftover challenges
Convenience package for solving some liftover challenges
Convert a Graph into a D3js Script
Convert a Graph into a D3js Script
Convert epivizr workspaces to GViz plots, and viceversa
Convert epivizr workspaces to GViz plots, and viceversa
Copy number information from targeted sequencing using off-target reads
Copy number information from targeted sequencing using off-target reads
Copy number information from targeted sequencing using off-target reads
Copy number information from targeted sequencing using off-target reads
Copy number prediction with correction for GC and mappability bias for HTS data
Copy number prediction with correction for GC and mappability bias for HTS data
Copy Number study and Segmentation for multivariate biological data
Copy Number study and Segmentation for multivariate biological data
CoRegNet : reconstruction and integrated analysis of co-regulatory networks
CoRegNet : reconstruction and integrated analysis of co-regulatory networks
CoRegNet : reconstruction and integrated analysis of co-regulatory networks
CoRegNet : reconstruction and integrated analysis of co-regulatory networks
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework
Coverage visualization package for R
Coverage visualization package for R
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
Creates diffusion maps
Creates diffusion maps
Creates diffusion maps
Cross-target analysis of small molecule bioactivity
Cross-target analysis of small molecule bioactivity
Cross-target analysis of small molecule bioactivity
Cross-target analysis of small molecule bioactivity
dagLogo
dagLogo
dagLogo
dagLogo
Data analysis for cell-based functional assays
Data analysis for cell-based functional assays
Data Management API for epiviz interactive visualization app
Data Management API for epiviz interactive visualization app
Data Management API for epiviz interactive visualization app
deltaGseg
deltaGseg
Detection of focal aberrations in DNA copy number data
Detection of focal aberrations in DNA copy number data
Development and validation of diagnostic tests from high-dimensional molecular data
Development and validation of diagnostic tests from high-dimensional molecular data
DiffLogo: A comparative visualisation of biooligomer motifs
DiffLogo: A comparative visualisation of biooligomer motifs
DiffLogo: A comparative visualisation of sequence motifs
Dimension Reduction for Array CGH Data with Minimal Information Loss.
Dimension Reduction for Array CGH Data with Minimal Information Loss.
Disease Ontology Semantic and Enrichment analysis
Disease Ontology Semantic and Enrichment analysis
Disease Ontology Semantic and Enrichment analysis
Disease Ontology Semantic and Enrichment analysis
Display and manipulate graphs in Cytoscape
Display and manipulate graphs in Cytoscape
Display and manipulate graphs in Cytoscape >= 3.3.0
Display and manipulate graphs in Cytoscape >= 3.3.0
Display and manipulate graphs in Cytoscape >= 3.3.0
Display and manipulate graphs in cytoscape.js
Display and manipulate graphs in cytoscape.js
Display and manipulate heatmaps in clustergrammer.js
DMRforPairs: identifying Differentially Methylated Regions between unique samples using array based methylation profiles
DMRforPairs: identifying Differentially Methylated Regions between unique samples using array based methylation profiles
DNA IP-seq data analysis
DNA IP-seq data analysis
DNA IP-seq data analysis
DNA IP-seq data analysis
DNA methylation data analysis and visualization
DNA methylation data analysis and visualization
Efficient compression and analysis of Hi-C Data
Empirical Bayesian approach to mutational signature discovery
Empirical Bayesian approach to mutational signature discovery
Empirical Bayesian approach to mutational signature discovery
Enrichment Analysis for Gene Ontology
Enrichment Analysis for Gene Ontology
Estimate Pairwise Interactions from multidimensional features
Estimate Pairwise Interactions from multidimensional features
Exploratory analysis and differential expression for RNA-seq data
Exploratory analysis and differential expression for RNA-seq data
Explores single cell copy number profiles in the context of a single cell tree
Export plotting files to the xmapBridge for visualisation in X:Map
Export plotting files to the xmapBridge for visualisation in X:Map
Exposome and omic data associatin and integration analysis
Expression data analysis via the Iterative Signature Algorithm
Expression data analysis via the Iterative Signature Algorithm
Expression Weighted Celltype Enrichment
Expression Weighted Celltype Enrichment
Extended project Morpheus with Bioconductor methods
Extended project Morpheus with Bioconductor methods
FABIA: Factor Analysis for Bicluster Acquisition
FABIA: Factor Analysis for Bicluster Acquisition
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms
Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms
Feature-based association and gene-set enrichment for copy number alteration analysis in cancer
Feature-based association and gene-set enrichment for copy number alteration analysis in cancer
Fingerprinting for Flow Cytometry
Fingerprinting for Flow Cytometry
Fitting cell population growth models
Fitting cell population growth models
Flexible and Customized Logo Plots using symbols, alphabets, numbers and alphanumeric strings
Flexible and Customized Logo Plots using symbols, alphabets, numbers and alphanumeric strings
Flexible and Customized Logo Plots using symbols, alphabets, numbers and alphanumeric strings
Flexible Heatmaps for Functional Genomics and Sequence Features
Flexible Heatmaps for Functional Genomics and Sequence Features
flowPlots: analysis plots and data class for gated flow cytometry data
flowPlots: analysis plots and data class for gated flow cytometry data
Functional Gene Networks derived from biological enrichment analyses
Functional Gene Networks derived from biological enrichment analyses
Functions for Gene Ontology database
Functions for Gene Ontology database
Functions to perform cancer outlier profile analysis.
Functions to perform cancer outlier profile analysis.
Gene Break Detection
Gene Break Detection
geneChip Analysis Package
geneChip Analysis Package
Gene expression changes in three biological conditions
Gene expression changes in three biological conditions
Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
Generate PanViz visualisations from your pangenome
Generate PanViz visualisations from your pangenome
Generate PanViz visualisations from your pangenome
Generate Summary Plots of FastQC Reports
Generating SAM file for PSMs in shotgun proteomics data
Generating SAM file for PSMs in shotgun proteomics data
GeneRegionScan
GeneRegionScan
Gene-Specific Phenotype EstimatoR
Gene-Specific Phenotype EstimatoR
Gene-Specific Phenotype EstimatoR
Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.
Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.
Genome Level Trellis Layout
Genome Level Trellis Layout
Genome Level Trellis Layout
Genome Level Trellis Layout
Global visualization tool of genomic data
Global visualization tool of genomic data
Graph examples and use cases in Bioinformatics
Graph examples and use cases in Bioinformatics
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation
Graphical user interface for OLIN
Graphical user interface for OLIN
Graphics related functions for Bioconductor
Graphics related functions for Bioconductor
Graphics related functions for Bioconductor
graph support for KO, KEGG Orthology
graph support for KO, KEGG Orthology
GSCA: Gene Set Context Analysis
GSCA: Gene Set Context Analysis
GSCA: Gene Set Context Analysis
GSCA: Gene Set Context Analysis
GUI for exploratory data analysis of systems biology data
GUI for exploratory data analysis of systems biology data
GUI for exploratory data analysis of systems biology data
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data
Heat map plotting by genome coordinate
Heat map plotting by genome coordinate
Heatmaps with row and/or column covariates and colored clusters
Heatmaps with row and/or column covariates and colored clusters
Heatmaps with row and/or column covariates and colored clusters
High-quality circular visualization of omics data
High-quality circular visualization of omics data
High-Throughput Sequence Analysis using the Aroma Framework
Hilbert curve visualization
Hilbert curve visualization
HilbertVisGUI
HilbertVisGUI
Hits Selection for Synthetic Lethal RNAi Screen Data
Hits Selection for Synthetic Lethal RNAi Screen Data
Identification and Assessment of Single Nucleotide Variants through Shifts in Non-Consensus Base Call Frequencies
Identification and Assessment of Single Nucleotide Variants through Shifts in Non-Consensus Base Call Frequencies
Identification and Assessment of Single Nucleotide Variants through Shifts in Non-Consensus Base Call Frequencies
Identifying differential DNA loops from chromatin topology data
Identifying differential DNA loops from chromatin topology data
Identifying differential DNA loops from chromatin topology data
idiogram
idiogram
igvNgl: explore relations between DNA variants and protein structure
Image processing and analysis toolbox for R
Image processing and analysis toolbox for R
Image processing and analysis toolbox for R
Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure
Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure
Inference of differential exon usage in RNA-Seq
Inference of differential exon usage in RNA-Seq
Integrated Analysis on two human genomic datasets
Integrated Analysis on two human genomic datasets
Integrated Interpretation of Genes
Integrated Interpretation of Genes
Integration of Disease Similarity Methods
Integration of Disease Similarity Methods
Integration of Disease Similarity Methods
Integrative Analysis and Visualization of Epigenomic Sequencing Data
Integrative Analysis and Visualization of Epigenomic Sequencing Data
Interactive, Complex Heatmaps
Interactive Differential Expression AnaLysis
Interactive Differential Expression AnaLysis
Interactive HTML graphics
Interactive HTML graphics
Interactive HTML graphics
Interactive Multi-Omics Cancers Data Visualization and Analysis
Interactive Multi-Omics Cancers Data Visualization and Analysis
Interactive Multi-Omics Cancers Data Visualization and Analysis
Interactive visualisation of spatial proteomics data
Interactive visualisation of spatial proteomics data
Interactive visualisation of spatial proteomics data
Interactive visualization and manipulation of nested networks
Interactive visualization and manipulation of nested networks
Interactive Visualization for Genomic Features
Interactive Visualization of RNA-seq Data Using a Principal Components Approach
Interactive Visualization of RNA-seq Data Using a Principal Components Approach
Interactive Visualization of RNA-seq Data Using a Principal Components Approach
IP-seq data analysis and vizualization
IP-seq data analysis and vizualization
IP-seq data analysis and vizualization
KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor
KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor
Laplacian eigenmaps & principal curves for pseudotemporal ordering of single-cell RNA-seq data
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
Linear Model decomposition for Designed Multivariate Experiments
Linear Model decomposition for Designed Multivariate Experiments
Make read coverage plots from BigWig files
Make read coverage plots from BigWig files
Making 2D Hilbert Curve
Making 2D Hilbert Curve
Making 2D Hilbert Curve
Making 2D Hilbert Curve
Making Complex Heatmaps
Making Complex Heatmaps
Making Complex Heatmaps
Making Complex Heatmaps
Making Enriched Heatmaps
Making Enriched Heatmaps
Making Enriched Heatmaps
Making Enriched Heatmaps
Manipulating and exploring protein and proteomics data
Manipulating and exploring protein and proteomics data
Manipulating and exploring protein and proteomics data
mapscape
Massive and Integrative Gene Set Analysis
Massive and Integrative Gene Set Analysis
Massive and Integrative Gene Set Analysis
Matched Interaction across Tissues (MIxT) data analysis
MBDDiff for processing MBDcap-seq datasets
MDSRefMaps: an R Package for Multidimensional Scaling Reference Maps and Projections
Merge Maid
Merge Maid
Meta-data and tools for E. coli
Meta-data and tools for E. coli
Methods for Continuous Flow Cytometry
Methods for Single-Cell RNA-Seq Data Analysis
Methods for Single-Cell RNA-Seq Data Analysis
Methods for Single-Cell RNA-Seq Data Analysis
MicroArray Chromosome Analysis Tool
MicroArray Chromosome Analysis Tool
Microbial Assemblage Normalized Transcript Analysis
Microbial Assemblage Normalized Transcript Analysis
Microbial Community Analysis GUI
Microbial Community Analysis GUI
mimager: The Microarray Imager
mimager: The Microarray Imager
mimager: The Microarray Imager
Mismatch Tolerant Maximum Common Substructure Searching
Mismatch Tolerant Maximum Common Substructure Searching
Mismatch Tolerant Maximum Common Substructure Searching
Mismatch Tolerant Maximum Common Substructure Searching
Mixture modeling of single-cell RNA-seq data to indentify genes with differential distributions
Mixture modeling of single-cell RNA-seq data to indentify genes with differential distributions
Mixture modeling of single-cell RNA-seq data to indentify genes with differential distributions
Model-View-Controller (MVC) Classes
Model-View-Controller (MVC) Classes
Model-View-Controller (MVC) Classes That Use Biobase
Model-View-Controller (MVC) Classes That Use Biobase
Multi sample aCGH analysis package using kernel convolution
Multi sample aCGH analysis package using kernel convolution
Navigating mass spectral similarity in high-resolution MS/MS metabolomics data
Navigating mass spectral similarity in high-resolution MS/MS metabolomics data
Navigating mass spectral similarity in high-resolution MS/MS metabolomics data
Navigating mass spectral similarity in high-resolution MS/MS metabolomics data
Network Seriation And Modularization
Network Seriation And Modularization
ontology enrichment analysis
Open-source toolkit to analyse data from xCELLigence System (RTCA)
Open-source toolkit to analyse data from xCELLigence System (RTCA)
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized local intensity-dependent normalisation of two-color microarrays
Optimized local intensity-dependent normalisation of two-color microarrays
OSAT: Optimal Sample Assignment Tool
OSAT: Optimal Sample Assignment Tool
Package for enabling powerful shiny web displays of Bioconductor objects
Package for enabling powerful shiny web displays of Bioconductor objects
Package for high-throughput data processing, outlier detection, noise removal and dynamic modeling
Package for high-throughput data processing, outlier detection, noise removal and dynamic modeling
Package for Topology-based Pathway Analysis of RNASeq data
Package for Topology-based Pathway Analysis of RNASeq data
Package to work with miRNAs and miRNA targets with R
Package to work with miRNAs and miRNA targets with R
PathoStat Statistical Microbiome Analysis Package
PathoStat Statistical Microbiome Analysis Package
PathoStat Statistical Microbiome Analysis Package
Patient Clonal Timescapes
patternCNV: a versatile tool for detecting copy number changes from exome-seq data
pcaGoPromoter is used to analyze DNA micro array data
pcaGoPromoter is used to analyze DNA micro array data
Peptide Annotation and Data Visualization using Gviz
Peptide Annotation and Data Visualization using Gviz
Peptide Annotation and Data Visualization using Gviz
Perform a maximum contrast projection of 3D images along the z-dimension into 2D
Perform a maximum contrast projection of 3D images along the z-dimension into 2D
Perform a maximum contrast projection of 3D images along the z-dimension into 2D
Performance Assessment and Comparison for Survival Analysis
Performance Assessment and Comparison for Survival Analysis
Performance Assessment and Comparison for Survival Analysis
pipeline for single cell RNA-seq data analysis
Platform for integrative analysis of omics data
Platform for integrative analysis of omics data
Platform for integrative analysis of omics data
Plot customizable linear genomes displaying arbitrary data
Plot customizable linear genomes displaying arbitrary data
Plot customizable linear genomes displaying arbitrary data
Plots data (continuous/discrete) along chromosomal ideogram
Plots data (continuous/discrete) along chromosomal ideogram
Plots of Statistics Collected by Qualimap from RNASeq Data
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Plot the effect of one omics data on other omics data along the chromosome
Plot the effect of one omics data on other omics data along the chromosome
Plot the effect of one omics data on other omics data along the chromosome
Plotting data and annotation information along genomic coordinates
Plotting data and annotation information along genomic coordinates
Plotting functions for derfinder
Plotting functions for derfinder
Plotting functions for derfinder
Plotting genomic information from Ensembl
Plotting genomic information from Ensembl
Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations
Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations
Preprocessing of GC-MS metabolomics data with a GUI and interactive plots.
Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data
Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data
Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data
Probabilistic inference of ChIP-seq
Probabilistic inference of ChIP-seq
Probabilistic inference of ChIP-seq
Provides plotting capabilities for R graph objects
Provides plotting capabilities for R graph objects
Provides plotting capabilities for R graph objects
Quality Control for Single-Cell RNA-seq Data
Quality Control for Single-Cell RNA-seq Data
Quality Control for Single-Cell RNA-seq Data
Quality Control for Single-Cell RNA-seq Data
Quantile smoothing and genomic visualization of array data
Quantile smoothing and genomic visualization of array data
Quick Read Quality Control
Quick Read Quality Control
Quick Read Quality Control
rcellminer: Molecular Profiles and Drug Response for the NCI-60 Cell Lines
rcellminer: Molecular Profiles and Drug Response for the NCI-60 Cell Lines
rcellminer: Molecular Profiles and Drug Response for the NCI-60 Cell Lines
Reactome Pathway Analysis
Reactome Pathway Analysis
Reactome Pathway Analysis
Read density map construction and accession. Visualization of ChIPSeq and RNASeq data sets
Read density map construction and accession. Visualization of ChIPSeq and RNASeq data sets
Regional Expression Biases
Regional Expression Biases
Render molecular pathways
Render molecular pathways
Report of DEG analysis
Report of DEG analysis
Report of DEG analysis
R functions
R interface to a subset of OpenBabel functionalities
R interface to a subset of OpenBabel functionalities
R interface to a subset of OpenBabel functionalities
R Interface to epiviz web app
R Interface to epiviz web app
R Interface to epiviz web app
R Interface to epiviz web app
R Interface to epiviz web app
R interface to epiviz web components
R interface to epiviz web components
R interface to epiviz web components
R interface to genome browsers and their annotation tracks
R interface to genome browsers and their annotation tracks
R Interface to the metaviz web app for interactive metagenomics data analysis and visualization
R Interface to the metaviz web app for interactive metagenomics data analysis and visualization
R Interface to the metaviz web app for interactive metagenomics data analysis and visualization
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
rnaSeq secondary analyses
rnaSeq secondary analyses
RNA-Seq Utilities
RNA-Seq Utilities
RNA-Seq Utilities
R package for Manhattan Plots
R package for Manhattan Plots
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data
Rplot.extra
Run Epiviz Interactive Genomic Data Visualization App within R
Run Epiviz Interactive Genomic Data Visualization App within R
Run Epiviz Interactive Genomic Data Visualization App within R
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
Seamless navigation through combined results of set-based and network-based enrichment analysis
Seamless navigation through combined results of set-based and network-based enrichment analysis
Seamless navigation through combined results of set-based and network-based enrichment analysis
Segmentation of single- and multi-track copy number data by penalized least squares regression.
Segmentation of single- and multi-track copy number data by penalized least squares regression.
Segvis: A package for visualization of high throughout sequencing data along genomic segments
SEPA
SEPA
SEPA
Shape-based Analysis of Variation in ChIP-seq using Functional PCA
Shape-based Analysis of Variation in ChIP-seq using Functional PCA
SigFuge
SigFuge
SigFuge
Similarity measures for chemical compounds
Similarity measures for chemical compounds
Simplified RNA-Seq Analysis Pipeline
Simplified RNA-Seq Analysis Pipeline
Single-cell analysis toolkit for gene expression data in R
Single-cell analysis toolkit for gene expression data in R
Single-cell analysis toolkit for gene expression data in R
Single-Cell Consensus Clustering
Single-Cell Consensus Clustering
Single-Cell Consensus Clustering
Single-Cell RNA-Seq Utilities
Single-Cell RNA-Seq Utilities
Single-Cell RNA-Seq Utilities
Single Molecule Localization Microscopy visualization and analysis in R
Single-Sample Classifier of Medulloblastoma Subtypes for Medulloblastoma Patient Samples, Mouse Models, and Cell Lines
Single-Sample Classifier of Medulloblastoma Subtypes for Medulloblastoma Patient Samples, Mouse Models, and Cell Lines
small RNA-Seq Utilities
Soft clustering of time series gene expression data
Soft clustering of time series gene expression data
Somatic Signatures
Somatic Signatures
Somatic Signatures
SPADE -- An analysis and visualization tool for Flow Cytometry
SPADE -- An analysis and visualization tool for Flow Cytometry
SPADEVizR: an R package for Visualization, Analysis and Integration of SPADE results
Splice Interpreter Of Transcripts
Splice Interpreter Of Transcripts
StatePaintR: a tool for creating and documenting reproducible chromatin state annotations from StateHub
StatePaintR: a tool for creating and documenting reproducible chromatin state annotations from StateHub
statistical analysis and visualization of functional profiles for genes and gene clusters
statistical analysis and visualization of functional profiles for genes and gene clusters
statistical analysis and visualization of functional profiles for genes and gene clusters
statistical analysis and visualization of functional profiles for genes and gene clusters
Statistical analysis for sparse high-throughput sequencing
Statistical analysis for sparse high-throughput sequencing
Statistical analysis for sparse high-throughput sequencing
Statistical analysis of high-throughput RNAi screens
Statistical analysis of high-throughput RNAi screens
Statistics and dIagnostic Graphs for HTS
Statistics and dIagnostic Graphs for HTS
Suite of Functions for Pooled Crispr Screen QC and Analysis
Suite of Functions for Pooled Crispr Screen QC and Analysis
Suite of Functions for Pooled Crispr Screen QC and Analysis
Summarize, Analyze and Visualize MAF Files
Summarize, Analyze and Visualize MAF Files
Summarize, Analyze and Visualize MAF Files
Summary, annotation and visualization of genomic data
Summary, annotation and visualization of genomic data
Summary, annotation and visualization of genomic data
supraHex: a supra-hexagonal map for analysing tabular omics data
supraHex: a supra-hexagonal map for analysing tabular omics data
supraHex: a supra-hexagonal map for analysing tabular omics data
supraHex: a supra-hexagonal map for analysing tabular omics data
SwimR: A Suite of Analytical Tools for Quantification of C. elegans Swimming Behavior
SwimR: A Suite of Analytical Tools for Quantification of C. elegans Swimming Behavior
TARgeted SEQuencing Experiment Quality Control
TARgeted SEQuencing Experiment Quality Control
Test and visualize gene overlaps
Test and visualize gene overlaps
Test and visualize gene overlaps
The Cancer Genome Atlas Data Integration
Time course sequencing data analysis
Time course sequencing data analysis
Time course sequencing data analysis
Tools for computational epigenomics
Tools for computational epigenomics
Tools for counting and visualising mutations in a target location
Tools for counting and visualising mutations in a target location
Tools for counting and visualising mutations in a target location
Tools for curating, analyzing, and manipulating biological sequences
Tools for curating, analyzing, and manipulating biological sequences
Tools for HELP data analysis
Tools for HELP data analysis
Tools for making reports in various formats
Tools for making reports in various formats
Tools for making reports in various formats
Tools for microbiome analysis
Tools for ordering single-cell sequencing
Tools for performing taxonomic assignment.
Tools for performing taxonomic assignment.
Tools for Sanger Sequencing Data in R
Tools for Sanger Sequencing Data in R
Tools for visualizing genomics data
Tools for visualizing genomics data
Tools for visualizing genomics data
tools for working with cell fate maps
Tools to analyze in vivo microscopy imaging data focused on tracking flowing blood cells
Tools to analyze in vivo microscopy imaging data focused on tracking flowing blood cells
Tools to analyze in vivo microscopy imaging data focused on tracking flowing blood cells
Tools to analyze in vivo microscopy imaging data focused on tracking flowing blood cells.
Transcript mapping with high-density oligonucleotide tiling arrays
Transcript mapping with high-density oligonucleotide tiling arrays
trenaViz: network and genome track visualization for trena
TSCAN: Tools for Single-Cell ANalysis
TSCAN: Tools for Single-Cell ANalysis
TSCAN: Tools for Single-Cell ANalysis
TVTB: The VCF Tool Box
TVTB: The VCF Tool Box
TVTB: The VCF Tool Box
TVTB: The VCF Tool Box
Unified Wilcoxon-Mann Whitney Test for testing differential expression in qPCR data
Unified Wilcoxon-Mann Whitney Test for testing differential expression in qPCR data
Unified Wilcoxon-Mann Whitney Test for testing differential expression in qPCR data
Using self-organizing maps for visualization and interpretation of cytometry data
Using self-organizing maps for visualization and interpretation of cytometry data
Using self-organizing maps for visualization and interpretation of cytometry data
Using self-organizing maps for visualization and interpretation of cytometry data
Utilities to compute, compare, and plot the agreement between ordered vectors of features (ie. distinct genomic experiments). The package includes Correspondence-At-the-TOP (CAT) analysis.
Utilities to compute, compare, and plot the agreement between ordered vectors of features (ie. distinct genomic experiments). The package includes Correspondence-At-the-TOP (CAT) analysis.
Very simple high level analysis of Affymetrix data
Very simple high level analysis of Affymetrix data
Visual and interactive quality control of large Illumina DNA Methylation array data sets
Visual and interactive quality control of large Illumina DNA Methylation array data sets
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequences
Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequences
Visualization for flow cytometry
Visualization for flow cytometry
Visualization of high-throughput assays in microtitre plate or slide format
Visualization of high-throughput assays in microtitre plate or slide format
Visualization of multi-dimentional cancer genomics data
Visualization of multi-dimentional cancer genomics data
Visualization of multi-dimentional cancer genomics data
Visualizations for copy number alterations
Visualizations for copy number alterations
Visualizations of expressionSet Bioconductor object
Visualizations of expressionSet Bioconductor object
Visualization Tool for Sequence Recombination and Reassortment
Visualization tools for genomic data
Visualization tools for genomic data
Visualization tools for genomic data
Visualize artificial correlation in microarray data
Visualize artificial correlation in microarray data
Visualize biclusters identified in gene expression data
Visualize biclusters identified in gene expression data
Visualize Cytometry data with ggplot
Visualize Cytometry data with ggplot
Visualizing Hypergaphs
Visualizing Hypergaphs
Visualizing Structure in ecological site-species abundance data
WebSocket server infrastructure for epivizr apps and packages
WebSocket server infrastructure for epivizr apps and packages
WebSocket server infrastructure for epivizr apps and packages
Word cloud summaries of GO enrichment analysis
Word cloud summaries of GO enrichment analysis
Word cloud summaries of GO enrichment analysis
Workflow for Identifying Regulatory Elements from Chromatin Accessibility Assay Data
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
Yet Another Package for Signature Analysis
Yet Another Package for Signature Analysis
Yet Another Package for Signature Analysis
Yet Another Package for Signature Analysis
Yu's plot utilities