Figure 1. Screenshots of MArray, showing the analysis of a pair of dye swapped microarray experiments (One experiment where cDNA populations originating from two cell lines were labelled with two different fluorochomes and co-hybridised on-to a 2880 human gene microarray, was compared with one where the two cDNA were labelled with the opposite fluorochomes): a) MArray main window; b) MArray property window; c) Histogram plot of ratios; d, e) Log2-ratio vs. overall intensity plot of experiment 1, 2; f,g,h) Before filtering weak spots:  MArray analysis window, interactive scatter plot of ratios with a red-colored quality control ellipse and simple statistical plot (difference between paired experiment vs. overall mean intensity);  i,j,k) After filtering weak spots (signal-to-noise ratio <1): MArray analysis window, interactive scatter plot of ratio and simple statistical plot. For more details please see the text and the web site.

 

Download MArray
Please read "install.txt" and license file before installing the Matlab toolbox. Feel free to use the package in your academic research. If you use it, please cite the following paper:
Wang J, Nygaard V, Smith-Sorensen B, Hovig E, Myklebost O. MArray: analysing single, replicated or reversed microarray experiments. Bioinformatics. 2002 Aug;18(8):1139-40.