Figure 1

Illustrations of the M-CGH user interface, 1a) Summary information of each array CGH experiment is listed in the MATLAB command window; 1b) M-CGH main window, showing the parameters used, allowing manual adjustments, and spot information with a link to the Ensembl database (Clone2Web); 1c) Sub-array position normalization of CGH ratios, where the lower panel show the normalization factor used in each sub-array, indicating lack of discrepancies in this case; 1d) M-CGH help documentation; 1e) An interactive plot of log₂ CGH ratios as a function of their relative chromosomal locations, with estimated amplicon boundaries (pink smooth line); 1f) An interactive histogram plot of CGH ratios, with fitted Gaussian distributions (red smooth line); 1g) An interactive plot of log₂ CGH ratios as a function of their genome location, showing all chromosomes in numerical sequence, delimited by red lines.