Table 8 Microarray and RNAseq analysis viewers

ArrayXPath [201]

Mapping and visualizing microarray gene-expression data with integrated biological pathway resources using scalable vector graphics

http://www.snubi.org/software/ArrayXPath/

BicOverlapper [301, 302]

Supports visual analysis of gene expression by means of biclustering

http://vis.usal.es/bicoverlapper/

BiGGEsTS [303]

Tool providing an integrated environment for the biclustering analysis of time-series gene-expression data

http://tinyurl.com/BiGGEsTS/

eRNA [304]

RNA data analysis tool for high-throughput RNA sequencing experiments

https://sourceforge.net/projects/erna/?source=directory

EXPANDER [130]

A Java-based tool for analysis of gene-expression and NGS data

http://acgt.cs.tau.ac.il/expander/

ExpressionProfiler [305]

Web-based platform for microarray gene-expression and other functional-genomics-related data analysis

http://www.ebi.ac.uk/expressionprofiler

GenePattern [129]

Modular analysis web platform; several visualization modules available

http://genepattern.broadinstitute.org/gp/pages/login.jsf

Genesis [128]

Java package of tools to simultaneously visualize and analyze a whole set of gene-expression experiments

http://genome.tugraz.at/genesisclient/genesisclient_description.shtml

GeneVAnD [306]

Linked heatmaps, dendrograms and 2D/3D scatter plots

http://tinyurl.com/GeneVAnD/

geWorkbench [307]

A Java-based open-source platform for integrated genomics. It allows individually developed plugins to be configured into complex bioinformatic applications. Currently more than 70 available plugins supporting the visualization and analysis

http://wiki.c2b2.columbia.edu/workbench/index.php/Home

Gitools [308]

Analysis and visualization of genomic data using interactive heatmaps

http://www.gitools.org

HCE [309]

Linked heat map, profile and scatter plots; systematic exploration

http://www.cs.umd.edu/hcil/hce/

HeatmapGenerator [310]

Create customized gene-expression heatmaps from RNAseq and microarray data

http://sourceforge.net/projects/heatmapgenerator/

HeatMapViewer [311]

Interactive display of microarray experiments or the outcome of mutational studies and the study of SNP-like sequence variants

http://dx.doi.org/10.5281/zenodo.7706

Mayday [312]

A graphical user interface that supports the development and integration of existing and new analysis methods. Many linked visualizations

http://it.informatik.uni-tuebingen.de/?page_id=248/wp/

MultiExperiment Viewer [127]

Analysis suite. Heatmaps, dendrograms, profile and scatter plots

http://www.tm4.org/

PointCloudXplore [313]

Visualization of transcription data in Drosophila embryos. Multiple views to ease analysis of complex gene-expression data. This type of interaction blends high-dimensional information exploration with interactive, 3D visualization

http://tinyurl.com/PointCloudXplore/

RNASeqBrowser [314]

A genome browser for simultaneous visualization of raw strand specific RNAseq reads and UCSC genome browser custom tracks

http://www.australianprostatecentre.org/research/software/rnaseqbrowser

RNAseqViewer [315]

Visualization of the various data from the RNAseq analyzing process, for single or multiple samples

http://bioinfo.au.tsinghua.edu.cn/software/RNAseqViewer/

TimeSearcher [316]

Interactive querying and exploration of time-series data

http://www.cs.umd.edu/hcil/timesearcher/

TraV [317]

Visualization and analysis of multiple transcriptome sequencing experiments

http://appmibio.uni-goettingen.de/index.php?sec=serv