• A : The Project Explorer button
• B : The open file button. (Data Format)
• C : The Run button. Hit this button to start or resume the clustering process
• D : The stop button. Hit this button to interrupt the optimization process. You can restart the process by hitting the Run button (C) again. Depending on the size of the data, the interrupt request may take some time to complete (see ArrayMiner's Algorithm, Practical Issues)
• E : The save button. Hit this button to save your data in a particular format
• F : The exit button. Hit this button to exit the program or use it to send back the clustering to GeneSpring if you are running from the GeneSpring external interface
• G : The info button. This button will pop up the information window of the current data 

    The Help Panel of the Control Window explains at any time what is ArrayMiner's current state (What is going on) and what are the available next steps for the user (What to do next).

    PC (Windows) only:

• H : The Hold button. This button is used to "freeze" the optimization process. Use it if you need more processor time for other tasks on your computer. The algorithm will resume if you click the button again. The keyboard equivalent is F9.
• I : The status bar shows the state of the clustering algorithm on the left, and the data file on the right. Right-clicking the status bar brings up a popup menu facilitating direct access to the data file