Microarray Analysis Resources

Tools and other resources related to analyzing Microarray data. These include:

Major generalized software (Rosetta Resolver, Bioconductor)
Strong visualization tools (Spotfire)
special analysis tools (BAGEL)

Click on the name of a resource to go the home page (not at Harvard) for that resource. To view the list for a different category, or to see the Computational Biology Group's resource recommendations, go back to the Resource List home page

Name	Subcategory	Description	Version
ArrayOligoSelector	Oligo Selection	Systematically design gene specific long oligonucleotide probes for entire genomes, for the purpose of developing whole genome microarrays.	3.8.1
BAGEL	Bayesian analysis of gene expression levels	Bayesian Analysis of Gene Expression Levels: a program for the statistical analysis of spotted microarray data	InitialLin
Bioconductor	Genomic statistical analysis	Open source package with a very rich collection of tools for analysis and comprehension of genomic data	1.3
Cytoscape	Expression profile visualization	Visualization of molecular interaction networks and integration with expression profiles	1.1
DNA-Chip Analyzer (dChip)	The model-based approach allows probe-level analysis on multiple arrays	DNA-Chip Analyzer (dChip) is a software package implementing model-based expression analysis of oligonucleotide arrays and several high-level analysis procedures
Gmep		Computes genome-mean expression profiles from expression and sequence data	1.0.1
Rosetta Resolver	Resolver system is a gene expression analysis solution that incorporates powerful analysis tools.	Combines analysis, database, and server framework in one enterprise-wide solution	5.0
Spotfire	Protein and DNA Expression Analysis	Spotfire DecisionSite provides easy way cluster the expression profiles to find proteins with similar patterns and functional information.	8.1

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If you need some software not included in the resource list, please write to this address.