- The Jackson Laboratory

Here are some screen shot of J/maanova software. Click the thumbnail to view the full size picture in a new window.

	Main window view Users will see this window right after starting J/maanova.
	Read data dialog box
	RI plot and Arrayview On right panel, the upper part shows the RI plot and the lower part shows arrayview. Both plots are clickable. This feature is only available for two-color arrays
	Spot Information From RI plot or arrayview, users can choose a spot and view the detailed information, e.g., grid location, intensity readings, gene annotations, etc. Some annotation information are linked to popular databases.
	Model Summary
	Volcano plot Volcano plot for a F-test is also clickable. Users can view the detailed information for one gene. The control panel under the figure is for users to choose different combination of P-values and thresholds to pick genes.
	Significant gene list table The significant genes are shown in a table. Users can pick one or serveral of the genes to view the expression profile plot.
	K-means cluster The "consensus" K-means cluster for a given gene list. Users can adjust the threshold to get a new set of groups.