1. MATSAM: A MATLAB IMPLEMENTATION FOR SIGNIFICANCE ANALYSIS OF MICROARRAYS
- Author
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Ahmed Moussa, Tiratha Raj Singh, Brigitte Vannier, Ouafae Kaissi, Azeddine Ibrahimi, and Eric Nimpaye
- Subjects
Measure (data warehouse) ,Source code ,Computer science ,media_common.quotation_subject ,Expression (computer science) ,computer.software_genre ,Toolbox ,Set (abstract data type) ,Significance analysis of microarrays ,Multiple comparisons problem ,Data mining ,MATLAB ,computer ,computer.programming_language ,media_common - Abstract
Microarray experiments enable the simultaneous measure of expression levels of large amount of genes and have many applications. A widespread one is finding set of genes that are differentially expressed. Significance Analysis of Microarrays (SAM) helps to produce those sets using multiple testing techniques. There is unfortunately not yet a public tool enabling to do SAM using the Matlab platform. We here define MatSAM, a SAM implementation in Matlab, and show that it yields results of high confidence comparatively to those obtained by putative tools available in the R programming environment. MatSAM can be used in conjunction with Matlab Bioinformatics toolbox to perform further analysis. Availability : MatSAM is available as source code at http://www.bioinfoindia.org/MatSAM
- Published
- 2014
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