Figure 1
From: Automating dChip: toward reproducible sharing of microarray data analysis
The dChip automation dialog to specify automation file name, organize menu steps and viewpoints, and edit comments. The following menu steps and viewpoints are included in the automation file "lung_10k_demo": "Analysis/Open group" menu to open a set of array image files and read in a sample information file, "Analysis/Normalize & Model" menu to normalize data and compute SNP signal values, "Tools/Export expression" menu to export signal values into a data file, "Analysis/Chromosome" menu to view copy number and loss of heterozygosity data along chromosome, and a chromosome viewpoint to display an interesting chromosome region. Comments associated with an automation step can be edited in the box on the left. "Analysis/Normalize & Model" is not selected in the dialog since it only needs to be run once to save results into dChip internal data files, which are used in subsequent or shared dChip sessions.