ImageJ Basics

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Stacks… ‣Image > Stacks You need to have a series (time, z, x-y) of images which can be built into a stack. Opeining images as a numbered sequence will automatically create a stack. Compatible with Metamorph stacks. Measuring and analysis tools can be often used to apply to all images in a stack Convert Images to Stack: converts a set of 2D images that you have opened into a stack. Animate: animates the images in a stack at a rate up to 100 frames per second. Convert Stack to Images: splits the stack into individual images. Next Slice/Previous Slice: browsing images can be done using the > and < keys. The number of the current slice and the total number of slices are displayed in the title bar. You can also use the slider bar in the stack window. Z Project: simple projection algorithms designed to render 3D images into 2D projections, allows volume rendering, useful for visualizing the internal structures of 3D images. Biology Imaging
…Stacks For immediate maximum intensity projection (MIP) use this button on the tool bar: ‣Image > Stack > 3D Project: Allows you to project the stack and then rotate it. ‣Orthogonal view: provides an orthogonal (or section) view. ‣Image > Duplicate allows you to save the slice you are viewing as an individual file ‣Image > Stacks > Movies Time stamper: allows you to add the time information onto your movie. Zoomify: allows you to make a movie where you zoom in on a particular region. Biology Imaging
Page 1 and 2: ImageJ Basics - open source public
Page 3 and 4: Installation Different editions of
Page 5 and 6: ImageJ memory ‣Set high memory fo
Page 7 and 8: File menu: Opening, importing, savi
Page 9 and 10: Image Menu Working with different i
Page 11 and 12: Image type: greyscale LUTs, RGB ‣
Page 13: RGB channel splitting/merging/overl
Page 17 and 18: Image Adjustments: Threshold ‣Ima
Page 19 and 20: Calibrating image size units Calibr
Page 21 and 22: ImageJ Region measurements ‣ Area

ImageJ Basics

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