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Make sure the camera is on before opening µManager. If you're using Windows then double-click the µManager icon on the desktop. If you're using a Mac then you can click its icon in the dock. Note that the icon may say 'ImageJ' when you hover the mouse over it - that's normal.

Micro-Manager Windows and Mac icons

µManager configuration

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Select the correct configuration from the drop-down list that appears with the splash screen. The image below shows configuration for the QIClick on the Axioplan microscope. If the configuration you want isn't listed you can browse for it by clicking the button to the right of the list. If you want to process data without turning the camera on you can select '(none)' from the list.

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 Micro-Manager configurationImage Modified

µManager user interface

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The image on the right shows a typical µManager GUI. The details of the Groups and Presets may vary from system to system. Select the right Magnification Preset to match the objective lens and optovar (if applicable). Make sure the camera depth is set to its maximum (usually 12-bit). Click Live to get a live image. Click the Zoom tools to make the live image bigger or smaller. Set the exposure by typing a value in the field and change the binning if necessary. There may be a gain control. Click the Auto button next to the live image contrast histogram to auto-contrast the image once, or you can tick Autostretch to have auto contrast on constantly (see below).

Auto contrast tools

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Micro-Manager GUI

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