Software Category Description
| Software | Category | Description |
|---|---|---|
| SMD | Database | Stanford |
| LonghornArray Database | Database | OK State U |
| YaleMicroarray Database | Database | Yale |
| AMAD | Database | microarrays.org |
| ArrayExpress | Database | EBI |
| caArray | Database | NCI |
| MicroarrayEXP | Database | USDA - Soybean |
| Gene ExpressionOmnibus | Database | NCBI |
| UNC Microarray Database | Database | Univ of N Carolina - Chapel Hill |
| MaxD | Database | Manchester Bioinformatics |
| NOMAD | Database | Chris Seidel's Lab |
| MIDAS | Database | Sanger |
| IMAD | Database | Illinois |
| BASE | Database | Lund University |
| QuickLIMS | Database | MS Access version |
| DAVID | annotation | Provides a comprehensive set of tools forinvestigators to visually summarize annotation from large list ofgenes. |
| dragonhopkins | annotation | Geneannotation tool |
| geneLynx | annotation | Geneannotation |
| genetide | annotation | Geneannotation |
| globalviewer | annotation | providesa synthetic view of the transcriptional expressionprofiles of yeast genes |
| karma | annotation | Arraymanager and annotator |
| matchminer | annotation | nablesthe user to translate between disparate ids for the same gene |
| netaffyx | annotation | Affymetrixtools for annotation |
| Panther | annotation | Geneannotation |
| RESOURCERER:(TIGR) | annotation | provides annotation based on the TIGR GeneIndices (TGI) R |
| SOURCE | annotation | |
| CDFfiles | array information | Microarrays Data Libraries |
| chipinfo | array information | |
| CloneTracker | arrayinformation | System for managing and processing allinformation associated with fabrication of spotted microarrays |
| ArrayMaker | array maker | provideshigh performance robotic control of microarrayer robots |
| eXPatGen | cluster analysis | AnOn-line Gene Expression Pattern Generator |
| Clusteranalysis | clusteranalysis | On line software that do unsupervisedClustering |
| CWTC | clusteranalysis | A method designed to mine large sets ofmicroarray data. The basic idea is to perform two kinds of clusteranalysis; |
| fcluster | clusteranalysis | Software for fuzzy clustering |
| FreeView | clusteranalysis | Agene dendrogram viewer |
| FuzzyClustering | clusteranalysis | Containswell-known algorithms like the fuzzy c-means algorithm |
| GHMM | cluster analysis | MaxPlanck Institute for Molecular Genetics, Department of ComputationalMolecular Biology, University of Cologne |
| GIMM | cluster analysis | A clustering procedure based on theconcept of Bayesian model-averaging and a precise statistical model ofexpression data |
| GQL | clusteranalysis | A GHMM-based tool for querying andclustering Gene-Expression time-course data) |
| HeatMapBuilder | clusteranalysis | Generates customizable heatmaps frommicroarray data |
| lexcavator | cluster analysis | asoftware tool used for gene expression data clustering.EXCAVATOR can run on any platform with the Unix or Linux operatingsystem. |
| MCVE | clusteranalysis | A cluster validity tool for geneexpression data |
| page | cluster analysis | Tool to attach expression pattern to genesrepresented in a collection of hybridization array experiments |
| QuantumClustering | cluster analysis | |
| SOTA | clusteranalysis | On line software that do Clustering(calculus and graphics) |
| svmlight | clusteranalysis | This software does SVM (Clustering) |
| TreeArrangeand Treeps | clusteranalysis | Tool for displaying expression array dataand optional associated heirarchial clustering in the form ofencapsulated postscript files |
| TreeView | clusteranalysis | Graphically browse results of clusteringand other analyses from Cluster |
| XCluster | clusteranalysis | Perform hierarchical clustering,self-organizing maps |
| expressionanalysis | custom analysis | Specializinginmicroarray analysis,bioinformatics, and expression gene profiling service. |
| MicroarrayData Assembler | data assmebly | Excel-basedsoftware developed by Anbazhagan Ramaswamy forassembling microarray data |
| biogopher | data integration | facilitatesthe integration of your local bioinformatics data with public datasources |
| MAPS | data integration | System for management and interpretationof microarray gene expression experiment information and data |
| Microhelper | data integration | for merging datasets, checking dataintegrity, filtering noises, and normalizing data |
| ondex | data integration | Enables data from diverse biological data sets to be linked, integrated andvisualised |
| ACID | database | adatabase for microarray clone information |
| BASE | database | A comprehensive database server to managethe massive amounts of data generated by microarray analysis. |
| gominer | gene ontology | atool for biological interpretation of 'omic' data |
| GO-TermFinder | gene ontology | Finds GO terms significantly associatedwith a list of genes |
| OntologyTraverser | gene ontology | GOsearch using R |
| SparseLOGREG | gene selection | It makes use of LTI-Lib and the PythonImaging Library. I |
| AbleImage Analyser | image analysis | supports image analysis functions thatinclude dimensional, gray scale and 24 bits color measurements. |
| ArrayFox | image analysis | Automatic detection of background noiseand contaminations. |
| Array-Pro | image analysis | A tool for the nascent microarray andhigh-throughput screening research efforts fueling the genomics,proteomics, drug discovery and bioinfor |
| ArrayVision | image analysis | A flexible software package for thequantification of gene expression and protein arrays. |
| Dapple | image analysis | A program for quantitating spots on atwo-color DNA microarray image. |
| GenePixPro | image analysis | Batch Analysis tab for browsing andanalyzing batches of images |
| GridGrinder | image analysis | Offers industrial strength image analysisfeatures for microarrays |
| Iconoclust | image analysis | A powerfulimaging software for the analysis of array images of multipleformats. |
| ImaGene | image analysis | imageanalysis |
| Koadarray | image analysis | imageanalysis |
| MACROview | image analysis | Analyzes microarray images in TIFF formatthat are generated by microarray scanners |
| MicroVigene | image analysis | Includes many features and functions thatwill facilitatemicroarray images. |
| MicroVigene | image analysis | imageanalysis |
| PhoretixArray | image analysis | imageanalysis |
| QuantArray | image analysis | imageanalysis |
| ScanAlyze | image analysis | imageanalysis |
| SensiChipView | image analysis | An image analysis software package focusedto allow streamlined and intuitive image and data evaluation andproceding |
| Spatter:(Savannah) | image analysis | A software package which performs DNAmicroarray image analysis.er, and does not require any user interactionwhile it runs. |
| Spot | image analysis | imageanalysis |
| SpotReader | image analysis | imageanalysis |
| Cytoscape | network visualization | Visualizemolecular interaction |
| Pajek:Large Network Analysis | network visualization | |
| Relnet | network visualization | constructrelevance networks from their gene expression data. |
| Arrayplot | normalization | Normalisation software, with somevisalisation tools |
| SNOMAD | normalization | Standardization and Normalization of MicroArray Data |
| BAGEL | pathwayanalysis | BayesianAnalysis of Gene Expression Levels: a program for the statisticalanalysis of spotted microarray data. |
| GenMAPP | pathwayanalysis | Tools for visualizing data from geneexpression experiments in the context of biological pathways. |
| MGraph | pathway analysis | Graphicalmodels for microarray data analysis |
| ArrayDesigner | primer design | Tool assisting in primer design formicroarray construction |
| arrayExpress | repository | publicrepository for microarray data |
| princetondb | repository | |
| ArrayStat | statistical package | A unique statistical package that has beendesigned for analysis of microarray gene expression data |
| BAGEL | statisticalpackage | Bayesian Analysis of Gene ExpressionLevels: a program for the statistical analysis of spotted microarraydata. |
| BAMarray | statisticalpackage | Bayesian Analysis of Variance forMicroarrays - detect differentially expressed genes from multigroupmicroarray data |
| ChipST2C | statisticalpackage | HCA, K-means cluster analysis, T-test,Mann-Whitney, F-test, Kruskal-Wallis, Significant genes listed in Excelspreadsheets. |
| CLUSFAVOR | statisticalpackage | unsupervised hierarchical cluster andprincipal component analyses of DNA microarray transcriptional profiles. |
| CyberT | statisticalpackage | t-test for statistically significantdifferences between sample sets for arrays; |
| DTREG | statisticalpackage | Apowerful statistical analysis program |
| GeneMaths | statistical package | tools fortime-course experiments |
| GLR | statisticalpackage | A statistical analysis program toidentifydifferentially expressed genes from microarray data. |
| iGEA | statistical package | Foruse from the Windows command line |
| KNNimpute | statisticalpackage | Estimation of missing microarray values |
| MA-ANOVA | statistical package | A set of functions written in Matlab forthe analysis of variance on microarray data. |
| Octave | statistical package | Dataanalysis |
| PAM | statisticalpackage | Prediction Analysis for Microarrays |
| pcatutorial | statistical package | |
| P-scan | statistical package | Peak Quantification using StatisticalComparitive Analysis |
| R | statisticalpackage | A very popular software for statistician. |
| SAM | statistical package | Significance Analysis of Microarrays :Supervised learning software for genomic expression data mining |
| SAS | statistical package | statisticalanalysis |
| Statistica | statistical package | statisticalanalysis |
| SuperPC | statisticalpackage | Survival and regression analysis formicroarrays |
| VERA& SAM | statisticalpackage | Finding significant expression differencesin DNA microarray data |
| AMIADA | suite | an integrated computer program fororganizing, exploring, visualizing, and analyzing microarray data |
| ANOVATool | suite | NIAArray Analysis tool |
| AppliedMaths | suite | software |
| ArrayMiner® | suite | A set of analysis tools using advancedalgorithms to reveal the true structure of your microarray data. |
| ArrayPack | suite | Offers a suite of applications whichmanages all three parts of array expression projects. |
| arraypipe | suite | A Flexible Processing Pipeline for Microarray Data |
| arraytrack | suite | Microarraysuite |
| BioConductor | suite | An open source software for analyzinggenomic data,especially microarray data |
| BioDiscovery | suite | Image analysis, data management and tracking and data analysis software(Windows 95/98/NT4). |
| BRBarray tools | suite | An integrated package for thevisualization and statistical analysis of microarray gene expressiondata. T |
| CAGED | suite | Based on amethod called Bayesian Clustering by Dynamics, |
| cageda | suite | A free, open-source, collaborative onlinegene expression data analysis web application |
| DAMA | suite | Microarrayservice |
| dChip | suite | Low-level and high-level analysis ofoligonucleotide microarrays |
| EBItools | suite | microarraytool collection |
| engene | suite | Analysis tools for visualizing, pre-processing and clustering microarrayexpression data |
| Enodar | suite | Vendor |
| expressyourself | suite | Microarraydata processing platform |
| ExpressionProfiler | suite | A set oftools for clustering, analysis and visualization of gene expression andother genomic data. T sequences, study protein interactions, as well asto link analysis results to external tools and databases. |
| Expressionist | suite | Analysistools |
| ExpressionSieve | suite | Microarray data analysis package, strongin linking biological significance to expression patterns, |
| GAAS | suite | An integrated software framework forefficient management, analysis and visualization of large amounts ofgene expression data |
| GCOS | suite | Microarray suite |
| GEDA | suite | GeneExpression Data Analysis Tool |
| genepattern | suite | Supervised classification, gene selectionand permutation test methods. |
| genepublisher | suite | performsautomated data analysis |
| GeneSifter | suite | Combines data management and analysis tools. |
| GeneDirector | suite | acomprehensive microarray data management solution |
| geneGobi | suite | exploratoryanalysis of microarray data and metabolic networks |
| GeneLinker | suite | Gene expression and proteomics analysis software. |
| GenePattern | suite | apowerful analysis workflow tool |
| GenePilot | suite | Apowerful and intuitive MicroArray Analysis tool |
| GenePublisher | suite | Perform automated data analysis from geneexpression experiments on a number of different platforms. |
| GeneSifter | suite | Access to powerful statistical toolsthrough a web interface, with integrated features for determining thebiological significance of the data. |
| GeneSight | suite | Microarray suite |
| Genesis | suite | Microarraysuite |
| GeneSpring | suite | An analytical workbench for microarraydata analysis that enables visualization, organization and manipulationof gene expression data |
| GeneX | suite | a client application that provides aninterface to a relational database managment system |
| GeneXplorer | suite | Gene Expression Database : integratedtoolset for data analysis and comparison |
| GeneXPress | suite | Microarraysuite |
| GenMaths | suite | Analysis of high density microarrays andgene chips |
| Genowiz | suite | A Gene Expression Data Analysis andManagement Tool. |
| GEPAS | suite | A collection of tools for complete dataanalysis |
| GEPS | suite | provides interactive pattern analysis |
| gfinder | suite | Genome Function INtegrated Discoverer |
| GSEA | suite | Gene set enrichment analysis |
| IBMgene works | suite | a softwarepackage toanalyze patterns in gene array chip data. |
| INCLUSive | suite | INCLUSive(INtegrated CLustering, Upstream Sequence retrieval and motif) |
| J-ExpressPro: (MolMine) | suite | a comprehensive portable software package |
| LACK | suite | Charles C Kim & Stanley Falkow,Stanford University |
| limma | suite | ABioconductor module |
| MAExplorer | suite | Analyzed microarray data in specific steps. |
| Matarray | suite | aset of Matlab tools designed for the analysis of microarray data. |
| matlabtoolbox | suite | providesseveral methods for analysis |
| mchips | suite | integratedwith a software platform for microarray data analysis |
| MIDAS | suite | Dataanalysis |
| NIAMicroarray ANOVA To | suite | Dataanalysis |
| OntoTools | suite | Softwaresuite |
| orangecanvas | suite | |
| Partek | suite | |
| PARTISANarrayLIMS | suite | |
| RACE | suite | |
| Rosetta | suite | Arraymanager and annotator |
| ScoreGenes | suite | |
| SeqExpress | suite | |
| SilicoCyte | suite | An advanced, modular, flexible and highlyintegrated microarray analysis platform |
| SMD | suite | Microarray suite |
| SpotfirePro | suite | Spotfire Pro from Spotfire, Inc. |
| STEM | suite | AJava program for clustering, comparing,and visualizing short time series gene expression data ( |
| SVDMAN | suite | Program for Singular Value DecompositionAnalysis of global gene expression data |
| TableView | suite | Center for Computational GenomicsandBioinformatics, University of Minnesota |
| THEA | suite | suite |
| TIAMD | suite | Microarray suite |
| Vampire | suite | Microarray suite |
| VextorXpression | suite | Normalization, Filtering, sorting,clustering algorithms |
| CaryoScope | visualization | Viewing aCGH or expression data in awhole-genome context. |
| ciMiner | visualization | generatescolor-coded Clustered Image Maps to representgene expression profiles |
| Cleaver1.0 | visualization | Provides a variety of tools to assist inthe analysis of microarray expression data. I |
| Cluster | visualization | FromEisens lab |
| Cluster3.0 | visualization | Perform hierarchical clustering,self-organizing maps |
| F-scan | visualization | F-scan For the two channels of an image,generate a file containing spot intensities and addresses and display ascatterplot. Compare spot intensities between the red and greenchannels and generate a list of over and under expressed genes.Visually examine pairs of spots reported as differentially expressed. |
| JavaTreeview | visualization | View Results of Clustering |
| OmniViz | visualization | Datavisulaization |
| pcasvd | visualization | |
| slcview | visualization | ViewResults of Clustering |
| VennMapper | visualization | Smid M, Dorssers LC, Jenster G.Departmentof Pathology, Josephine Nefkens Institute. The Netherlands. |
AbleImage Analyser image analysis supports image analysis functions thatinclude dimensional, gray scale and 24 bits color measurements.
ACID database adatabase for microarray clone information
AMAD Database https://microarrays.org/
AMIADA suite an integrated computer program fororganizing, exploring, visualizing, and analyzing microarray data
ANOVATool suite NIAArray Analysis tool
AppliedMaths suite software
ArrayDesigner primer design Tool assisting in primer design formicroarray construction
ArrayExpress Database EBI
arrayExpress repository publicrepository for microarray data
ArrayFox image analysis Automatic detection of background noiseand contaminations.
ArrayMaker array maker provideshigh performance robotic control of microarrayer robots
ArrayMiner® suite A set of analysis tools using advancedalgorithms to reveal the true structure of your microarray data.
ArrayPack suite Offers a suite of applications whichmanages all three parts of array expression projects.
arraypipe suite A Flexible Processing Pipeline for Microarray Data
Arrayplot normalization Normalisation software, with somevisalisation tools
Array-Pro image analysis A tool for the nascent microarray andhigh-throughput screening research efforts fueling the genomics,proteomics, drug discovery and bioinfor
ArrayStat statistical package A unique statistical package that has beendesigned for analysis of microarray gene expression data
arraytrack suite Microarraysuite
ArrayVision image analysis A flexible software package for thequantification of gene expression and protein arrays.
BAGEL pathwayanalysis BayesianAnalysis of Gene Expression Levels: a program for the statisticalanalysis of spotted microarray data.
BAGEL statisticalpackage Bayesian Analysis of Gene ExpressionLevels: a program for the statistical analysis of spotted microarraydata.
BAMarray statisticalpackage Bayesian Analysis of Variance forMicroarrays - detect differentially expressed genes from multigroupmicroarray data
BASE Database Lund University
BASE database A comprehensive database server to managethe massive amounts of data generated by microarray analysis.
BioConductor suite An open source software for analyzinggenomic data,especially microarray data
BioDiscovery suite Image analysis, data management and tracking and data analysis software(Windows 95/98/NT4).
biogopher data integration facilitatesthe integration of your local bioinformatics data with public datasources
BRBarray tools suite An integrated package for thevisualization and statistical analysis of microarray gene expressiondata. T
caArray Database NCI
CAGED suite Based on amethod called Bayesian Clustering by Dynamics,
cageda suite A free, open-source, collaborative onlinegene expression data analysis web application
CDFfiles array information Microarrays Data Libraries
chipinfo array information
ChipST2C statisticalpackage HCA, K-means cluster analysis, T-test,Mann-Whitney, F-test, Kruskal-Wallis, Significant genes listed in Excelspreadsheets.
CloneTracker arrayinformation System for managing and processing allinformation associated with fabrication of spotted microarrays
CLUSFAVOR statisticalpackage unsupervised hierarchical cluster andprincipal component analyses of DNA microarray transcriptional profiles.
Clusteranalysis clusteranalysis On line software that do unsupervisedClustering
CWTC clusteranalysis A method designed to mine large sets ofmicroarray data. The basic idea is to perform two kinds of clusteranalysis;
CyberT statisticalpackage t-test for statistically significantdifferences between sample sets for arrays;
Cytoscape network visualization Visualizemolecular interaction
DAMA suite Microarrayservice
Dapple image analysis A program for quantitating spots on atwo-color DNA microarray image.
DAVID annotation Provides a comprehensive set of tools forinvestigators to visually summarize annotation from large list ofgenes.
dChip suite Low-level and high-level analysis ofoligonucleotide microarrays
dragonhopkins annotation Geneannotation tool
DTREG statisticalpackage Apowerful statistical analysis program
EBItools suite microarraytool collection
engene suite Analysis tools for visualizing, pre-processing and clustering microarrayexpression data
Enodar suite Vendor
eXPatGen cluster analysis AnOn-line Gene Expression Pattern Generator
expressionanalysis custom analysis Specializinginmicroarray analysis,bioinformatics, and expression gene profiling service.
Expressionist suite Analysistools
ExpressionProfiler suite A set oftools for clustering, analysis and visualization of gene expression andother genomic data. T sequences, study protein interactions, as well asto link analysis results to external tools and databases.
ExpressionSieve suite Microarray data analysis package, strongin linking biological significance to expression patterns,
expressyourself suite Microarraydata processing platform
fcluster clusteranalysis Software for fuzzy clustering
FreeView clusteranalysis Agene dendrogram viewer
FuzzyClustering clusteranalysis Containswell-known algorithms like the fuzzy c-means algorithm
GAAS suite An integrated software framework forefficient management, analysis and visualization of large amounts ofgene expression data
GCOS suite Microarray suite
GEDA suite GeneExpression Data Analysis Tool
Gene ExpressionOmnibus Database NCBI
GeneDirector suite acomprehensive microarray data management solution
geneGobi suite exploratoryanalysis of microarray data and metabolic networks
GeneLinker suite Gene expression and proteomics analysis software.
geneLynx annotation Geneannotation
GeneMaths statistical package tools fortime-course experiments
genepattern suite Supervised classification, gene selectionand permutation test methods.
GenePattern suite apowerful analysis workflow tool
GenePilot suite Apowerful and intuitive MicroArray Analysis tool
GenePixPro image analysis Batch Analysis tab for browsing andanalyzing batches of images
genepublisher suite performsautomated data analysis
GenePublisher suite Perform automated data analysis from geneexpression experiments on a number of different platforms.
GeneSifter suite Combines data management and analysis tools.
GeneSifter suite Access to powerful statistical toolsthrough a web interface, with integrated features for determining thebiological significance of the data.
GeneSight suite Microarray suite
Genesis suite Microarraysuite
GeneSpring suite An analytical workbench for microarraydata analysis that enables visualization, organization and manipulationof gene expression data
genetide annotation Geneannotation
GeneX suite a client application that provides aninterface to a relational database managment system
GeneXplorer suite Gene Expression Database : integratedtoolset for data analysis and comparison
GeneXPress suite Microarraysuite
GenMAPP pathwayanalysis Tools for visualizing data from geneexpression experiments in the context of biological pathways.
GenMaths suite Analysis of high density microarrays andgene chips
Genowiz suite A Gene Expression Data Analysis andManagement Tool.
GEPAS suite A collection of tools for complete dataanalysis
GEPS suite provides interactive pattern analysis
gfinder suite Genome Function INtegrated Discoverer
GHMM cluster analysis MaxPlanck Institute for Molecular Genetics, Department of ComputationalMolecular Biology, University of Cologne
GIMM cluster analysis A clustering procedure based on theconcept of Bayesian model-averaging and a precise statistical model ofexpression data
globalviewer annotation providesa synthetic view of the transcriptional expressionprofiles of yeast genes
GLR statisticalpackage A statistical analysis program toidentifydifferentially expressed genes from microarray data.
gominer gene ontology atool for biological interpretation of 'omic' data
GO-TermFinder gene ontology Finds GO terms significantly associatedwith a list of genes
GQL clusteranalysis A GHMM-based tool for querying andclustering Gene-Expression time-course data)
GridGrinder image analysis Offers industrial strength image analysisfeatures for microarrays
GSEA suite Gene set enrichment analysis
HeatMapBuilder clusteranalysis Generates customizable heatmaps frommicroarray data
IBMgene works suite a softwarepackage toanalyze patterns in gene array chip data.
Iconoclust image analysis A powerfulimaging software for the analysis of array images of multipleformats.
iGEA statistical package Foruse from the Windows command line
IMAD Database Illinois
ImaGene image analysis imageanalysis
INCLUSive suite INCLUSive(INtegrated CLustering, Upstream Sequence retrieval and motif)
karma annotation Arraymanager and annotator
KNNimpute statisticalpackage Estimation of missing microarray values
Koadarray image analysis imageanalysis
lexcavator cluster analysis asoftware tool used for gene expression data clustering.EXCAVATOR can run on any platform with the Unix or Linux operatingsystem.
LonghornArray Database Database OK State U
MA-ANOVA statistical package A set of functions written in Matlab forthe analysis of variance on microarray data.
MACROview image analysis Analyzes microarray images in TIFF formatthat are generated by microarray scanners
MAPS data integration System for management and interpretationof microarray gene expression experiment information and data
matchminer annotation nablesthe user to translate between disparate ids for the same gene
MaxD Database Manchester Bioinformatics
MCVE clusteranalysis A cluster validity tool for geneexpression data
MGraph pathway analysis Graphicalmodels for microarray data analysis
MicroarrayData Assembler data assmebly Excel-basedsoftware developed by Anbazhagan Ramaswamy forassembling microarray data
MicroarrayEXP Database USDA - Soybean
Microhelper data integration for merging datasets, checking dataintegrity, filtering noises, and normalizing data
MicroVigene image analysis Includes many features and functions thatwill facilitatemicroarray images.
MicroVigene image analysis imageanalysis
MIDAS Database Sanger
netaffyx annotation Affymetrixtools for annotation
NOMAD Database Chris Seidel's Lab
Octave statistical package Dataanalysis
ondex data integration Enables data from diverse biological data sets to be linked, integrated andvisualised
OntologyTraverser gene ontology GOsearch using R
page cluster analysis Tool to attach expression pattern to genesrepresented in a collection of hybridization array experiments
Pajek:Large Network Analysis network visualization
PAM statisticalpackage Prediction Analysis for Microarrays
Panther annotation Geneannotation
pcatutorial statistical package
PhoretixArray image analysis imageanalysis
princetondb repository
P-scan statistical package Peak Quantification using StatisticalComparitive Analysis
QuantArray image analysis imageanalysis
QuantumClustering cluster analysis
QuickLIMS Database MS Access version
R statisticalpackage A very popular software for statistician.
Relnet network visualization constructrelevance networks from their gene expression data.
RESOURCERER:(TIGR) annotation provides annotation based on the TIGR GeneIndices (TGI) R
SAM statistical package Significance Analysis of Microarrays :Supervised learning software for genomic expression data mining
SAS statistical package statisticalanalysis
ScanAlyze image analysis imageanalysis
SensiChipView image analysis An image analysis software package focusedto allow streamlined and intuitive image and data evaluation andproceding
SMD Database Stanford
SNOMAD normalization Standardization and Normalization of MicroArray Data
SOTA clusteranalysis On line software that do Clustering(calculus and graphics)
SOURCE annotation
SparseLOGREG gene selection It makes use of LTI-Lib and the PythonImaging Library. I
Spatter:(Savannah) image analysis A software package which performs DNAmicroarray image https://analysis.er%2C/ and does not require any user interactionwhile it runs.
Spot image analysis imageanalysis
SpotReader image analysis imageanalysis
Statistica statistical package statisticalanalysis
SuperPC statisticalpackage Survival and regression analysis formicroarrays
svmlight clusteranalysis This software does SVM (Clustering)
TreeArrangeand Treeps clusteranalysis Tool for displaying expression array dataand optional associated heirarchial clustering in the form ofencapsulated postscript files
TreeView clusteranalysis Graphically browse results of clusteringand other analyses from Cluster
UNC Microarray Database Database Univ of N Carolina - Chapel Hill
VERA& SAM statisticalpackage Finding significant expression differencesin DNA microarray data
XCluster clusteranalysis Perform hierarchical clustering,self-organizing maps
YaleMicroarray Database Database Yale