1) From the Welcome screen, launch the Project Setup Wizard for the chosen workflow.
2) Normalize your data (if necessary), import annotations and attributes, and organize your experiments into replicate sets using the Project Setup Wizard.
3) View your imported data, and further organize it, if desired, in the Experiment List view.
4) Select Graphs > Scatter Plot to view a pairwise comparison in the Scatter Plot view. Select statistical tests from the Info Pane, and then click on the resulting links to select genes of interest.
5) Select Clustering > Hierarchical to view a Hierarchical clustering of your data set in the Heat Map view. Select genes of interest by clicking on a node in the Gene Tree, shown on the vertical axis of the Heat Map.
6) Select Data > Show Gene Ontology to view significant ontology/classification terms for the selected genes in the Gene Ontology view.
7) Select Clustering > k-Means to cluster the selected genes with the k-Means method, and display your results in the Line Graph Thumbnails view. Double-click on a graph in the Line Graph Thumbnails view to launch the Line Graph view for the cluster you selected.
8) Select Edit > Copy Image of Graph to copy the active graphical view to your clipboard so that you can paste it into another application such as Microsoft PowerPoint or Adobe Illustrator. (When pasting, use Edit > Paste, or Edit > Paste Special and then select “Enhanced Metafile”).
9) Select Data > Show [n] Table to explore a variety of tables showing details for the genes, isoforms, exons, SNPs, peaks or fragments in your project. Add columns to tables by using the associated toolbar tools. Click on hotlinks for Gene Ontology terms and other annotations to view more information online.
10) Select File > Save Project to save your work as an ArrayStar project (.astar).